plink1.9 →
1.90~b3.36-160416-1 →
armhf → 2016-05-08 06:08:41
sbuild (Debian sbuild) 0.66.0 (04 Oct 2015) on bm-wb-02
+==============================================================================+
| plink1.9 1.90~b3.36-160416-1 (armhf) 08 May 2016 05:47 |
+==============================================================================+
Package: plink1.9
Version: 1.90~b3.36-160416-1
Source Version: 1.90~b3.36-160416-1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/plink1.9-1IsOpy/plink1.9-1.90~b3.36-160416' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/plink1.9-1IsOpy' with '<<BUILDDIR>>'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-5152c3eb-1f0a-4fa3-b24c-d917831109b9' with '<<CHROOT>>'
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| Update chroot |
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Get:1 http://172.17.0.1/private stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private stretch-staging/main Sources [8951 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [11.0 MB]
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| Fetch source files |
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Check APT
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Download source files with APT
------------------------------
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NOTICE: 'plink1.9' packaging is maintained in the 'Git' version control system at:
https://anonscm.debian.org/git/debian-med/plink1.9.git
Please use:
git clone https://anonscm.debian.org/git/debian-med/plink1.9.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 737 kB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main plink1.9 1.90~b3.36-160416-1 (dsc) [2146 B]
Get:2 http://172.17.0.1/private stretch-staging/main plink1.9 1.90~b3.36-160416-1 (tar) [727 kB]
Get:3 http://172.17.0.1/private stretch-staging/main plink1.9 1.90~b3.36-160416-1 (diff) [8504 B]
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Check dependencies
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Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-4FYY7v/apt_archive/sbuild-build-depends-core-dummy.deb'.
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+------------------------------------------------------------------------------+
| Install core build dependencies (apt-based resolver) |
+------------------------------------------------------------------------------+
Installing build dependencies
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The following NEW packages will be installed:
sbuild-build-depends-core-dummy
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Filtered Build-Depends: debhelper (>= 9), help2man, libatlas-base-dev, liblapack-dev, zlib1g-dev
dpkg-deb: building package 'sbuild-build-depends-plink1.9-dummy' in '/<<BUILDDIR>>/resolver-CNFB57/apt_archive/sbuild-build-depends-plink1.9-dummy.deb'.
OK
Get:1 file:/<<BUILDDIR>>/resolver-CNFB57/apt_archive ./ InRelease
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Get:3 file:/<<BUILDDIR>>/resolver-CNFB57/apt_archive ./ Release.gpg [299 B]
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+------------------------------------------------------------------------------+
| Install plink1.9 build dependencies (apt-based resolver) |
+------------------------------------------------------------------------------+
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism file gettext gettext-base gfortran
gfortran-5 groff-base help2man intltool-debian libarchive-zip-perl
libatlas-base-dev libatlas-dev libatlas3-base libblas-common libblas-dev
libblas3 libbsd0 libcroco3 libffi6 libfile-stripnondeterminism-perl
libgfortran-5-dev libgfortran3 libglib2.0-0 libicu55 liblapack-dev
liblapack3 liblocale-gettext-perl libmagic1 libpipeline1 libsigsegv2 libtool
libunistring0 libxml2 m4 man-db po-debconf zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev gfortran-doc
gfortran-5-doc libgfortran3-dbg groff libblas-doc liblapack-doc
liblapack-doc-man libtool-doc gcj-jdk less www-browser libmail-box-perl
Recommended packages:
curl | wget | lynx-cur libglib2.0-data shared-mime-info xdg-user-dirs
libltdl-dev xml-core libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism file gettext gettext-base gfortran
gfortran-5 groff-base help2man intltool-debian libarchive-zip-perl
libatlas-base-dev libatlas-dev libatlas3-base libblas-common libblas-dev
libblas3 libbsd0 libcroco3 libffi6 libfile-stripnondeterminism-perl
libgfortran-5-dev libgfortran3 libglib2.0-0 libicu55 liblapack-dev
liblapack3 liblocale-gettext-perl libmagic1 libpipeline1 libsigsegv2 libtool
libunistring0 libxml2 m4 man-db po-debconf
sbuild-build-depends-plink1.9-dummy zlib1g-dev
0 upgraded, 45 newly installed, 0 to remove and 4 not upgraded.
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Get:2 http://172.17.0.1/private stretch-staging/main armhf liblocale-gettext-perl armhf 1.07-1+b1 [18.0 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf groff-base armhf 1.22.3-7 [1083 kB]
Get:4 http://172.17.0.1/private stretch-staging/main armhf libbsd0 armhf 0.8.3-1 [89.0 kB]
Get:5 http://172.17.0.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.10 [177 kB]
Get:6 http://172.17.0.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:7 http://172.17.0.1/private stretch-staging/main armhf man-db armhf 2.7.5-1 [975 kB]
Get:8 http://172.17.0.1/private stretch-staging/main armhf libunistring0 armhf 0.9.3-5.2 [253 kB]
Get:9 http://172.17.0.1/private stretch-staging/main armhf libmagic1 armhf 1:5.25-2 [250 kB]
Get:10 http://172.17.0.1/private stretch-staging/main armhf file armhf 1:5.25-2 [61.2 kB]
Get:11 http://172.17.0.1/private stretch-staging/main armhf gettext-base armhf 0.19.7-2 [111 kB]
Get:12 http://172.17.0.1/private stretch-staging/main armhf libicu55 armhf 55.1-7 [7380 kB]
Get:13 http://172.17.0.1/private stretch-staging/main armhf libxml2 armhf 2.9.3+dfsg1-1 [800 kB]
Get:14 http://172.17.0.1/private stretch-staging/main armhf libsigsegv2 armhf 2.10-5 [28.4 kB]
Get:15 http://172.17.0.1/private stretch-staging/main armhf m4 armhf 1.4.17-5 [239 kB]
Get:16 http://172.17.0.1/private stretch-staging/main armhf autoconf all 2.69-10 [338 kB]
Get:17 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20160430.1 [72.6 kB]
Get:18 http://172.17.0.1/private stretch-staging/main armhf automake all 1:1.15-4 [735 kB]
Get:19 http://172.17.0.1/private stretch-staging/main armhf autopoint all 0.19.7-2 [424 kB]
Get:20 http://172.17.0.1/private stretch-staging/main armhf libffi6 armhf 3.2.1-4 [18.5 kB]
Get:21 http://172.17.0.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.48.0-1 [2540 kB]
Get:22 http://172.17.0.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-1 [131 kB]
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Get:24 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
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Get:26 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.57-1 [95.1 kB]
Get:27 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.016-1 [11.9 kB]
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Get:31 http://172.17.0.1/private stretch-staging/main armhf debhelper all 9.20160403 [800 kB]
Get:32 http://172.17.0.1/private stretch-staging/main armhf libgfortran3 armhf 5.3.1-14 [153 kB]
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Get:34 http://172.17.0.1/private stretch-staging/main armhf gfortran-5 armhf 5.3.1-14 [23.7 MB]
Get:35 http://172.17.0.1/private stretch-staging/main armhf gfortran armhf 4:5.3.1-1+rpi1 [1362 B]
Get:36 http://172.17.0.1/private stretch-staging/main armhf help2man armhf 1.47.3 [154 kB]
Get:37 http://172.17.0.1/private stretch-staging/main armhf libblas-common armhf 3.6.0-2 [13.5 kB]
Get:38 http://172.17.0.1/private stretch-staging/main armhf libatlas3-base armhf 3.10.2-9+rpi1 [1896 kB]
Get:39 http://172.17.0.1/private stretch-staging/main armhf libblas3 armhf 3.6.0-2 [110 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf libblas-dev armhf 3.6.0-2 [116 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf libatlas-dev armhf 3.10.2-9+rpi1 [64.9 kB]
Get:42 http://172.17.0.1/private stretch-staging/main armhf libatlas-base-dev armhf 3.10.2-9+rpi1 [2496 kB]
Get:43 http://172.17.0.1/private stretch-staging/main armhf liblapack3 armhf 3.6.0-2 [1382 kB]
Get:44 http://172.17.0.1/private stretch-staging/main armhf liblapack-dev armhf 3.6.0-2 [1355 kB]
Get:45 http://172.17.0.1/private stretch-staging/main armhf zlib1g-dev armhf 1:1.2.8.dfsg-2+b1 [197 kB]
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Setting up man-db (2.7.5-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libunistring0:armhf (0.9.3-5.2) ...
Setting up libmagic1:armhf (1:5.25-2) ...
Setting up file (1:5.25-2) ...
Setting up gettext-base (0.19.7-2) ...
Setting up libicu55:armhf (55.1-7) ...
Setting up libxml2:armhf (2.9.3+dfsg1-1) ...
Setting up libsigsegv2:armhf (2.10-5) ...
Setting up m4 (1.4.17-5) ...
Setting up autoconf (2.69-10) ...
Setting up autotools-dev (20160430.1) ...
Setting up automake (1:1.15-4) ...
update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode
Setting up autopoint (0.19.7-2) ...
Setting up libffi6:armhf (3.2.1-4) ...
Setting up libglib2.0-0:armhf (2.48.0-1) ...
No schema files found: doing nothing.
Setting up libcroco3:armhf (0.6.11-1) ...
Setting up gettext (0.19.7-2) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up po-debconf (1.0.19) ...
Setting up libarchive-zip-perl (1.57-1) ...
Setting up libfile-stripnondeterminism-perl (0.016-1) ...
Setting up libtool (2.4.6-0.1) ...
Setting up libgfortran3:armhf (5.3.1-14) ...
Setting up libgfortran-5-dev:armhf (5.3.1-14) ...
Setting up gfortran-5 (5.3.1-14) ...
Setting up gfortran (4:5.3.1-1+rpi1) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
Setting up help2man (1.47.3) ...
Setting up libblas-common (3.6.0-2) ...
Setting up libatlas3-base (3.10.2-9+rpi1) ...
update-alternatives: using /usr/lib/atlas-base/atlas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode
update-alternatives: using /usr/lib/atlas-base/atlas/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode
Setting up libblas3 (3.6.0-2) ...
Setting up libblas-dev (3.6.0-2) ...
update-alternatives: using /usr/lib/libblas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode
Setting up libatlas-dev (3.10.2-9+rpi1) ...
Setting up libatlas-base-dev (3.10.2-9+rpi1) ...
update-alternatives: using /usr/lib/atlas-base/atlas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode
update-alternatives: using /usr/lib/atlas-base/atlas/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode
Setting up liblapack3 (3.6.0-2) ...
Setting up liblapack-dev (3.6.0-2) ...
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-2+b1) ...
Setting up dh-autoreconf (12) ...
Setting up debhelper (9.20160403) ...
Setting up sbuild-build-depends-plink1.9-dummy (0.invalid.0) ...
Setting up dh-strip-nondeterminism (0.016-1) ...
Processing triggers for libc-bin (2.22-7) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 3.19.0-trunk-armmp armhf (armv7l)
Toolchain package versions: binutils_2.26-8 dpkg-dev_1.18.4 g++-5_5.3.1-14 gcc-5_5.3.1-14 libc6-dev_2.22-7 libstdc++-4.9-dev_4.9.3-14 libstdc++-5-dev_5.3.1-14 libstdc++6_5.3.1-14 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: acl_2.2.52-3 adduser_3.114 apt_1.2.11 autoconf_2.69-10 automake_1:1.15-4 autopoint_0.19.7-2 autotools-dev_20160430.1 base-files_9.6+rpi1 base-passwd_3.5.39 bash_4.3-14 binutils_2.26-8 bsdmainutils_9.0.10 bsdutils_1:2.28-1 build-essential_11.7 bzip2_1.0.6-8 coreutils_8.25-2 cpio_2.11+dfsg-5 cpp_4:5.3.1-1+rpi1 cpp-5_5.3.1-14 dash_0.5.8-2.2 debconf_1.5.59 debfoster_2.7-2 debhelper_9.20160403 debianutils_4.7 dh-autoreconf_12 dh-strip-nondeterminism_0.016-1 diffutils_1:3.3-3 dmsetup_2:1.02.123-1 dpkg_1.18.4 dpkg-dev_1.18.4 e2fslibs_1.43~WIP.2016.03.15-2 e2fsprogs_1.43~WIP.2016.03.15-2 fakeroot_1.20.2-1 file_1:5.25-2 findutils_4.6.0+git+20160126-2 g++_4:5.3.1-1+rpi1 g++-5_5.3.1-14 gcc_4:5.3.1-1+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.3-14 gcc-5_5.3.1-14 gcc-5-base_5.3.1-14 gettext_0.19.7-2 gettext-base_0.19.7-2 gfortran_4:5.3.1-1+rpi1 gfortran-5_5.3.1-14 gnupg_1.4.20-6 gpgv_1.4.20-6 grep_2.25-1 groff-base_1.22.3-7 gzip_1.6-5 help2man_1.47.3 hostname_3.17 init_1.31 init-system-helpers_1.31 initscripts_2.88dsf-59.3 insserv_1.14.0-5.3 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-8+rpi1 kmod_22-1.1 libacl1_2.2.52-3 libapparmor1_2.10-4 libapt-pkg4.12_1.0.9.10 libapt-pkg5.0_1.2.11 libarchive-zip-perl_1.57-1 libasan1_4.9.3-14 libasan2_5.3.1-14 libatlas-base-dev_3.10.2-9+rpi1 libatlas-dev_3.10.2-9+rpi1 libatlas3-base_3.10.2-9+rpi1 libatomic1_5.3.1-14 libattr1_1:2.4.47-2 libaudit-common_1:2.4.5-1 libaudit1_1:2.4.5-1 libblas-common_3.6.0-2 libblas-dev_3.6.0-2 libblas3_3.6.0-2 libblkid1_2.28-1 libbsd0_0.8.3-1 libbz2-1.0_1.0.6-8 libc-bin_2.22-7 libc-dev-bin_2.22-7 libc6_2.22-7 libc6-dev_2.22-7 libcap2_1:2.24-12 libcap2-bin_1:2.24-12 libcc1-0_5.3.1-14 libcomerr2_1.43~WIP.2016.03.15-2 libcroco3_0.6.11-1 libcryptsetup4_2:1.7.0-2 libdb5.3_5.3.28-11 libdbus-1-3_1.10.8-1 libdebconfclient0_0.209 libdevmapper1.02.1_2:1.02.123-1 libdpkg-perl_1.18.4 libdrm2_2.4.67-1 libfakeroot_1.20.2-1 libfdisk1_2.28-1 libffi6_3.2.1-4 libfile-stripnondeterminism-perl_0.016-1 libgc1c2_1:7.4.2-7.4 libgcc-4.9-dev_4.9.3-14 libgcc-5-dev_5.3.1-14 libgcc1_1:5.3.1-14 libgcrypt20_1.7.0-2 libgdbm3_1.8.3-13.1 libgfortran-5-dev_5.3.1-14 libgfortran3_5.3.1-14 libglib2.0-0_2.48.0-1 libgmp10_2:6.1.0+dfsg-2 libgomp1_5.3.1-14 libgpg-error0_1.22-1 libicu55_55.1-7 libisl15_0.16.1-1 libklibc_2.0.4-8+rpi1 libkmod2_22-1.1 liblapack-dev_3.6.0-2 liblapack3_3.6.0-2 liblocale-gettext-perl_1.07-1+b1 liblz4-1_0.0~r131-2 liblzma5_5.1.1alpha+20120614-2.1 libmagic1_1:5.25-2 libmount1_2.28-1 libmpc3_1.0.3-1 libmpfr4_3.1.4-1 libncurses5_6.0+20160319-1 libncursesw5_6.0+20160319-1 libpam-modules_1.1.8-3.2 libpam-modules-bin_1.1.8-3.2 libpam-runtime_1.1.8-3.2 libpam0g_1.1.8-3.2 libpcre3_2:8.38-3.1 libperl5.22_5.22.1-9 libpipeline1_1.4.1-2 libpng12-0_1.2.54-6 libprocps3_2:3.3.9-9 libprocps5_2:3.3.11-3 libreadline6_6.3-8+b3 libseccomp2_2.3.0-1 libselinux1_2.5-2 libsemanage-common_2.5-1 libsemanage1_2.5-1 libsepol1_2.5-1 libsigsegv2_2.10-5 libslang2_2.3.0-2.3 libsmartcols1_2.28-1 libss2_1.43~WIP.2016.03.15-2 libstdc++-4.9-dev_4.9.3-14 libstdc++-5-dev_5.3.1-14 libstdc++6_5.3.1-14 libsystemd0_229-5 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160319-1 libtool_2.4.6-0.1 libubsan0_5.3.1-14 libudev1_229-5 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-28 libustr-1.0-1_1.0.4-5 libuuid1_2.28-1 libxml2_2.9.3+dfsg1-1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch login_1:4.2-3.1 lsb-base_9.20160110+rpi1 m4_1.4.17-5 make_4.1-9 makedev_2.3.1-93 man-db_2.7.5-1 manpages_4.05-1 mawk_1.3.3-17 mount_2.28-1 multiarch-support_2.22-7 nano_2.5.3-3 ncurses-base_6.0+20160319-1 ncurses-bin_6.0+20160319-1 passwd_1:4.2-3.1 patch_2.7.5-1 perl_5.22.1-9 perl-base_5.22.1-9 perl-modules-5.22_5.22.1-9 po-debconf_1.0.19 procps_2:3.3.11-3 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-plink1.9-dummy_0.invalid.0 sed_4.2.2-7.1 sensible-utils_0.0.9 startpar_0.59-3 systemd_229-5 systemd-sysv_229-5 sysv-rc_2.88dsf-59.3 sysvinit-utils_2.88dsf-59.3 tar_1.28-2.1 tzdata_2016d-2 udev_229-5 util-linux_2.28-1 xz-utils_5.1.1alpha+20120614-2.1 zlib1g_1:1.2.8.dfsg-2+b1 zlib1g-dev_1:1.2.8.dfsg-2+b1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Wed Apr 27 00:44:20 2016 UTC using RSA key ID AFE826FB
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./plink1.9_1.90~b3.36-160416-1.dsc
dpkg-source: info: extracting plink1.9 in plink1.9-1.90~b3.36-160416
dpkg-source: info: unpacking plink1.9_1.90~b3.36-160416.orig.tar.xz
dpkg-source: info: unpacking plink1.9_1.90~b3.36-160416-1.debian.tar.xz
dpkg-source: info: applying 01_Fix_use_internal_lib.patch
dpkg-source: info: applying 02_Activate_Stable_Build.patch
Check disc space
----------------
Sufficient free space for build
User Environment
----------------
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=stretch-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=stretch-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=stretch-staging-armhf-sbuild-5152c3eb-1f0a-4fa3-b24c-d917831109b9
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: source package plink1.9
dpkg-buildpackage: source version 1.90~b3.36-160416-1
dpkg-buildpackage: source distribution unstable
dpkg-source --before-build plink1.9-1.90~b3.36-160416
dpkg-buildpackage: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_testdir
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_clean
rm -f plink1.9
rm -f plink1.9.1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_clean
debian/rules build-arch
dh build-arch
dh_testdir -a
dh_update_autotools_config -a
dh_auto_configure -a
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<PKGBUILDDIR>>'
/usr/bin/make CFLAGS='-Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro'
make[2]: Entering directory '/<<PKGBUILDDIR>>'
g++ -Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro plink.c plink_assoc.c plink_calc.c plink_cluster.c plink_cnv.c plink_common.c plink_data.c plink_dosage.c plink_family.c plink_filter.c plink_glm.c plink_help.c plink_homozyg.c plink_lasso.c plink_ld.c plink_matrix.c plink_misc.c plink_perm.c plink_rserve.c plink_set.c plink_stats.c SFMT.c dcdflib.c pigz.c yarn.c Rconnection.cc hfile.c bgzf.c -o plink -llapack -lcblas -latlas -lm -lpthread -ldl -lz
In file included from plink.c:19:0:
plink.c: In function 'int32_t plink(char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, Two_col_params*, Two_col_params*, char*, char*, char*, char*, Two_col_params*, Two_col_params*, Two_col_params*, Two_col_params*, Two_col_params*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, uint32_t, double, double, double, double, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, int32_t, char*, uint32_t, uint32_t, Chrom_info*, Oblig_missing_info*, Family_info*, double, double, uint32_t, uint32_t, double, double, double, double, double, double, double, double, uint64_t, uint64_t, uint64_t, uint32_t, long unsigned int, uint32_t, long unsigned int, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, double, double, Homozyg_info*, Cluster_info*, uint32_t, uint32_t, Set_info*, Ld_info*, Epi_info*, Clump_info*, Rel_info*, Score_info*, uint32_t, uint32_t, uint32_t, uint32_t, int32_t, int32_t, int32_t, char*, char*, char*, Range_list*, uint32_t, uint32_t, Range_list*, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, double, uint32_t, uint32_t, Range_list*, Range_list*, double, double, double, uint32_t, double, uint32_t, Aperm_info*, uint32_t, long unsigned int, uint32_t, double, uint32_t, double, Range_list*, uint32_t, uint32_t, uint32_t, int32_t, Ll_str**)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink.c:621:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " %s (%u male%s, %u female%s, %u ambiguous) loaded from .fam.\n", unfiltered_sample_ct, species_str(unfiltered_sample_ct), uii, (uii == 1)? "" : "s", ujj, (ujj == 1)? "" : "s", gender_unk_ct);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink.c:627:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " %s (%d male%s, %d female%s) loaded from .fam.\n", unfiltered_sample_ct, species_str(unfiltered_sample_ct), uii, (uii == 1)? "" : "s", ujj, (ujj == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink.c:830:4: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--extract range: %" PRIuPTR " variant%s remaining.\n", uljj, (uljj == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink.c:849:4: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--exclude range: %" PRIuPTR " variant%s remaining.\n", uljj, (uljj == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink.c:1063:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--prune: %" PRIuPTR " %s remaining.\n", unfiltered_sample_ct - sample_exclude_ct, species_str(unfiltered_sample_ct - sample_exclude_ct));
^
plink.c:1144:127: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Too many --parallel jobs (maximum %" PRIuPTR "/2 = %" PRIuPTR ").\n", sample_ct, sample_ct / 2);
^
plink.c:1144:127: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
In file included from plink.c:19:0:
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink.c:1256:5: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("Before main variant filters, %" PRIuPTR " founder%s and %" PRIuPTR " nonfounder%s present.\n", ulii, (ulii == 1)? "" : "s", sample_ct - ulii, (sample_ct - ulii == 1)? "" : "s");
^
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink.c:1256:5: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("Before main variant filters, %" PRIuPTR " founder%s and %" PRIuPTR " nonfounder%s present.\n", ulii, (ulii == 1)? "" : "s", sample_ct - ulii, (sample_ct - ulii == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink.c:1334:2: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " variant%s removed due to missing genotype data (--geno).\n", ulii, (ulii == 1)? "" : "s");
^
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink.c:1409:7: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("%" PRIuPTR " variant%s and %" PRIuPTR " %s pass filters and QC%s.\n", marker_ct, (marker_ct == 1)? "" : "s", sample_ct, species_str(sample_ct), (calculation_type & CALC_REL_CUTOFF)? " (before --rel-cutoff)": "");
^
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink.c:1409:7: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("%" PRIuPTR " variant%s and %" PRIuPTR " %s pass filters and QC%s.\n", marker_ct, (marker_ct == 1)? "" : "s", sample_ct, species_str(sample_ct), (calculation_type & CALC_REL_CUTOFF)? " (before --rel-cutoff)": "");
^
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink.c:1411:7: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("%" PRIuPTR " variant%s filters and QC.\n", marker_ct, (marker_ct == 1)? " passes" : "s pass");
^
plink.c:1424:341: warning: format '%u' expects argument of type 'unsigned int', but argument 7 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Among remaining phenotypes, %u %s and %u %s. (%" PRIuPTR " phenotype%s missing.)\n", pheno_nm_ct - pheno_ctrl_ct, (pheno_nm_ct - pheno_ctrl_ct == 1)? "is a case" : "are cases", pheno_ctrl_ct, (pheno_ctrl_ct == 1)? "is a control" : "are controls", sample_ct - pheno_nm_ct, (sample_ct - pheno_nm_ct == 1)? " is" : "s are");
^
In file included from plink.c:19:0:
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink.c:1451:6: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--pca-cluster-names/--pca-clusters: %" PRIuPTR " samples specified.\n", pca_sample_ct);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 8 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink.c:1994:11: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%s has %u case%s, %u control%s, and %" PRIuPTR " missing phenotype%s.\n", &(outname_end[1]), ujj, (ujj == 1)? "" : "s", ukk, (ukk == 1)? "" : "s", ulii, (ulii == 1)? "" : "s");
^
plink.c: In function 'int32_t rerun(uint32_t, uint32_t, int32_t*, uint32_t*, char***, char***, char**)':
plink.c:2677:103: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
fprintf(stderr, "Error: Line %" PRIuPTR " of --rerun log file is pathologically long.\n", line_idx);
^
plink.c: In function 'int32_t main(int32_t, char**)':
plink.c:13269:123: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
sprintf(g_logbuf, "%" PRId64 " MB RAM detected; reserving %" PRIdPTR " MB for main workspace.\n", llxx, malloc_size_mb);
^
plink.c:13271:117: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
sprintf(g_logbuf, "Failed to calculate system memory. Attempting to reserve %" PRIdPTR " MB.\n", malloc_size_mb);
^
In file included from plink.c:19:0:
plink_common.h:911:53: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink.c:13282:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("Allocated %" PRIdPTR " MB successfully, after larger attempt(s) failed.\n", malloc_size_mb);
^
In file included from plink_assoc.c:1:0:
plink_assoc.c: In function 'int32_t multcomp(char*, char*, uint32_t*, long unsigned int, char*, long unsigned int, uint32_t, Chrom_info*, double*, double, double, uint32_t, uint32_t, double, uint32_t*, double*)':
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_assoc.c:547:3: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("--adjust values (%" PRIuPTR " %s%s) written to %s .\n", chi_ct, is_set_test? "nonempty set" : "variant", (chi_ct == 1)? "" : "s", outname);
^
plink_assoc.c: In function 'int32_t testmiss(pthread_t*, FILE*, long unsigned int, char*, char*, uint32_t, uint32_t, double, double, uint32_t, double, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, uint32_t, Chrom_info*, long unsigned int, uint32_t, uint32_t*, uint32_t*, Aperm_info*, uint32_t, uint32_t, long unsigned int*, long unsigned int*, long unsigned int*, uint32_t)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_assoc.c:10184:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("Including %" PRIuPTR " loc%s in --test-missing permutation test.\n", marker_ct, (marker_ct == 1)? "us" : "i");
^
plink_calc.c: In function 'void ibs_test_range(uint32_t, long unsigned int*, double*)':
plink_calc.c:948:34: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\b\b%" PRIuPTR "%%", pct);
^
plink_calc.c: In function 'void* groupdist_jack_thread(void*)':
plink_calc.c:1869:38: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\r%" PRIuPTR "%%", uljj);
^
plink_calc.c: In function 'void* regress_rel_jack_thread(void*)':
plink_calc.c:1963:38: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\r%" PRIuPTR "%%", uljj);
^
In file included from plink_calc.c:73:0:
plink_calc.c: In function 'int32_t unrelated_herit_batch(uint32_t, char*, char*, uint32_t, char*, int32_t, Rel_info*)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_calc.c:2457:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, grmname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_calc.c:2468:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, grmname);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_calc.c:2638:3: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--unrelated-heritability: %" PRIuPTR " phenotypes loaded.\n", pheno_nm_ct);
^
plink_calc.c: In function 'int32_t ibs_test_calc(pthread_t*, char*, long unsigned int, long unsigned int*, long unsigned int, long unsigned int, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*)':
plink_calc.c:2764:90: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("--ibs-test (%" PRIuPTR " permutations): [generating permutations]", perm_ct - 1);
^
In file included from plink_calc.c:73:0:
plink_calc.c: In function 'int32_t rel_cutoff_batch(uint32_t, char*, char*, char*, Rel_info*)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_calc.c:5917:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, grmname);
^
plink_calc.c: In function 'int32_t load_distance_wts(char*, long unsigned int, char*, long unsigned int, uint32_t, uint32_t, long unsigned int**, uint32_t*, double**)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_calc.c:6719:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, distance_wts_fname);
^
plink_calc.c:6744:118: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --distance-wts file has fewer tokens than expected.\n", line_idx);
^
plink_calc.c:6800:103: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid weight on line %" PRIuPTR " of --distance-wts file.\n", line_idx);
^
plink_calc.c: In function 'int32_t calc_rel(pthread_t*, uint32_t, uint32_t, uint64_t, Rel_info*, FILE*, long unsigned int, char*, char*, char*, uint32_t, long unsigned int, long unsigned int*, long unsigned int*, uint32_t, char*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, char*, long unsigned int, double*, double**, Chrom_info*)':
plink_calc.c:7038:58: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\r%" PRIuPTR " markers complete.", marker_idx);
^
plink_calc.c: In function 'int32_t calc_ibm(pthread_t*, FILE*, long unsigned int, long unsigned int, long unsigned int*, uint32_t, long unsigned int, long unsigned int*, long unsigned int, Chrom_info*)':
plink_calc.c:7972:58: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\r%" PRIuPTR " markers complete.", marker_idx);
^
plink_calc.c: In function 'int32_t calc_distance(pthread_t*, uint32_t, uint32_t, FILE*, long unsigned int, char*, char*, char*, char*, double, uint64_t, uint32_t, long unsigned int, long unsigned int*, uint32_t, char*, long unsigned int, double*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, Chrom_info*)':
plink_calc.c:8421:58: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\r%" PRIuPTR " markers complete.", marker_idx);
^
plink_calc.c: In function 'void* regress_jack_thread(void*)':
plink_calc.c:9756:38: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\r%" PRIuPTR "%%", uljj);
^
plink_cluster.c: In function 'int32_t load_clusters(char*, long unsigned int, long unsigned int*, long unsigned int*, char*, long unsigned int, uint32_t, uint32_t, long unsigned int*, uint32_t**, uint32_t**, char**, long unsigned int*, char*, char*, char*, char*, uint32_t)':
plink_cluster.c:108:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --keep-clusters file is pathologically long.\n", line_idx);
^
plink_cluster.c:182:114: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --remove-clusters file is pathologically long.\n", line_idx);
^
plink_cluster.c:220:112: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --remove-clusters file is pathologically long.\n", line_idx);
^
plink_cluster.c:299:99: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --within file is pathologically long.\n", line_idx);
^
In file included from plink_cluster.c:1:0:
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_cluster.c:435:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--within: %" PRIuPTR " cluster%s loaded, covering a total of %" PRIuPTR " %s.\n", cluster_ct, (cluster_ct == 1)? "" : "s", assigned_ct, species_str(assigned_ct));
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_cluster.c:435:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--within: %" PRIuPTR " cluster%s loaded, covering a total of %" PRIuPTR " %s.\n", cluster_ct, (cluster_ct == 1)? "" : "s", assigned_ct, species_str(assigned_ct));
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_cluster.c:527:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--family: %" PRIuPTR " cluster%s defined.\n", cluster_ct, (cluster_ct == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_cluster.c:535:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " %s removed by cluster filter(s).\n", ulii, species_str(ulii));
^
plink_cluster.c:550:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --within file has fewer tokens than expected.\n", line_idx);
^
In file included from plink_cluster.c:1:0:
plink_cluster.c: In function 'int32_t read_dists(char*, char*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, long unsigned int, uint32_t*, uint32_t*, uint32_t, uint32_t, double*, uint32_t, double*, uint32_t*)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_cluster.c:1077:2: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, id_fname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_cluster.c:1085:2: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, id_fname);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_cluster.c:1246:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--read-dists: %" PRIuPTR " values loaded%s.\n", (sample_ct * (sample_ct - 1)) / 2, for_cluster_flag? " for --cluster/--neighbor" : "");
^
plink_cluster.c: In function 'int32_t read_genome(char*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, long unsigned int*, double*, uint32_t, double*, uint32_t*, uint32_t*, double, uint32_t, long unsigned int, uint32_t*, uint32_t*)':
plink_cluster.c:1363:117: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: FID1/IID1 matches FID2/IID2 on line %" PRIuPTR " of --read-genome file.\n", line_idx);
^
plink_cluster.c:1373:107: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid PPC test value on line %" PRIuPTR " of --read-genome file.\n", line_idx);
^
plink_cluster.c:1383:107: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid IBS value on line %" PRIuPTR " of --read-genome file.\n", line_idx);
^
In file included from plink_cluster.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_cluster.c:1432:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of --read-genome file has fewer tokens than expected.\n", line_idx);
^
plink_cluster.c:1436:107: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --read-genome file is pathologically long.\n", line_idx);
^
plink_cluster.c: In function 'int32_t cluster_enforce_match(Cluster_info*, int32_t, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, long unsigned int, uint32_t*, uint32_t*, long unsigned int*)':
plink_cluster.c:1522:105: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --match-type file is pathologically long.\n", line_idx);
^
plink_cluster.c:1538:137: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --match-type file has an invalid token\n(0/1/-1/-/+/* expected).\n", line_idx);
^
plink_cluster.c:1587:98: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --match file is pathologically long.\n", line_idx);
^
plink_cluster.c:1755:95: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --qt file is pathologically long.\n", line_idx);
^
plink_cluster.c:1761:98: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --qt file has a non-numeric value.\n", line_idx);
^
plink_cluster.c:1766:150: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --qt file has an invalid tolerance (-1 = ignore,\nother values must be nonnegative).\n", line_idx);
^
plink_cluster.c:1800:99: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --qmatch file is pathologically long.\n", line_idx);
^
plink_cluster.c:1830:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --qmatch file has a non-numeric covariate.\n", line_idx);
^
In file included from plink_cluster.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_cluster.c:1933:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of --qmatch file has fewer tokens than expected.\n", line_idx);
^
plink_cluster.c:1937:109: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --match file has fewer tokens than expected.\n", line_idx);
^
plink_cnv.c: In function 'int32_t cnv_intersect_load(uint32_t, char*, char*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, uint32_t*, uint32_t*, uint64_t**, uint64_t**, int32_t, int32_t, uint32_t, Chrom_info*)':
plink_cnv.c:113:98: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, cift_str);
^
plink_cnv.c:124:111: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s file has fewer tokens than expected.\n", line_idx, cift_str);
^
plink_cnv.c:148:100: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid bp coordinate on line %" PRIuPTR " of %s.\n", line_idx, cift_str);
^
plink_cnv.c:152:100: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid bp coordinate on line %" PRIuPTR " of %s.\n", line_idx, cift_str);
^
In file included from plink_cnv.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_cnv.c:157:4: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Warning: End of range before start of range on line %" PRIuPTR " of\n%s.\n", line_idx, cift_str);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_cnv.c:192:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("(%" PRIuPTR " subsequent line%s with [end of range] < [start of range].)\n", reverse_warning_ct - 1, (reverse_warning_ct == 2)? "" : "s");
^
plink_cnv.c: In function 'int32_t cnv_first_nonheader_line(FILE*, long unsigned int*)':
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_cnv.c:333:7: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .cnv file is pathologically long.\n", line_idx);
^
plink_cnv.c: In function 'int32_t cnv_make_map(FILE*, char*, uint32_t, uint32_t, uint32_t, double, double, uint32_t, uint32_t, long unsigned int*, long unsigned int*, uint32_t*, uint32_t*, uint64_t*, uint64_t*, uint32_t, uint32_t, double, int32_t, int32_t, uint32_t, uint32_t, Chrom_info*, long unsigned int*, uint32_t*)':
plink_cnv.c:507:95: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .cnv file is pathologically long.\n", line_idx);
^
plink_cnv.c:517:103: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .cnv file has fewer tokens than expected.\n", line_idx);
^
plink_cnv.c:542:97: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid bp coordinate on line %" PRIuPTR " of .cnv file.\n", line_idx);
^
plink_cnv.c:546:126: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Segment end coordinate smaller than segment start on line %" PRIuPTR " of\n.cnv file.\n", line_idx);
^
plink_cnv.c:564:104: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid variant copy count on line %" PRIuPTR " of .cnv file.\n", line_idx);
^
plink_cnv.c:578:102: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid confidence score on line %" PRIuPTR " of .cnv file.\n", line_idx);
^
plink_cnv.c:588:97: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid probe count on line %" PRIuPTR " of .cnv file.\n", line_idx);
^
plink_cnv.c: In function 'int32_t validate_cnv_map(FILE**, char*, int32_t*, int32_t*, uint32_t, Chrom_info*, long unsigned int*, uint32_t*)':
plink_cnv.c:787:101: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid bp coordinate on line %" PRIuPTR " of .cnv.map file.\n", line_idx);
^
In file included from plink_cnv.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_cnv.c:831:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .cnv.map file has fewer tokens than expected.\n", line_idx);
^
plink_cnv.c:835:97: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .cnv.map is pathologically long.\n", line_idx);
^
In file included from plink_common.c:1:0:
plink_common.c: In function 'void chrom_error(const char*, const char*, const Chrom_info*, long unsigned int, int32_t)':
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_common.c:4732:5: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Error: Invalid chromosome code '%s' on line %" PRIuPTR " of %s.\n", chrom_name, line_idx, file_descrip);
^
plink_common.c: In function 'int32_t try_to_add_chrom_name(const char*, const char*, long unsigned int, uint32_t, uint32_t, int32_t*, Chrom_info*)':
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_common.c:4772:7: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Error: Line %" PRIuPTR " of %s has an excessively long chromosome/contig name. (The " PROG_NAME_CAPS " limit is " MAX_ID_SLEN_STR " characters.)\n", line_idx, file_descrip);
^
plink_common.c: In function 'int32_t open_and_size_string_list(char*, FILE**, long unsigned int*, long unsigned int*)':
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_common.c:9599:7: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, fname);
^
plink_common.c: In function 'int32_t load_to_first_token(FILE*, long unsigned int, char, const char*, char*, char**, long unsigned int*)':
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_common.c:9702:2: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, file_descrip);
^
plink_common.c: In function 'int32_t scan_max_strlen(char*, uint32_t, uint32_t, uint32_t, char, long unsigned int*, long unsigned int*)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_common.c:9776:9: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, fname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_common.c:9791:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, fname);
^
plink_common.c: In function 'int32_t scan_max_fam_indiv_strlen(char*, uint32_t, long unsigned int*)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_common.c:9861:2: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, fname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_common.c:9874:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, fname);
^
plink_data.c: In function 'int32_t load_map(FILE**, char*, uint32_t*, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int**, char**, Chrom_info*, uint32_t**, uint32_t*, uint32_t, uint32_t)':
plink_data.c:216:95: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .map file is pathologically long.\n", line_idx);
^
plink_data.c:321:99: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid bp coordinate on line %" PRIuPTR " of .map file.\n", line_idx);
^
plink_data.c:361:106: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .map file has fewer tokens than expected.\n", line_idx);
^
plink_data.c: In function 'int32_t load_bim(char*, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int**, double**, uint32_t**, char***, long unsigned int*, char**, char*, uint32_t, const char*, Chrom_info*, double**, uint32_t**, uint64_t, uint64_t, int32_t, int32_t, int32_t, char*, char*, char*, Range_list*, uint32_t*, uint32_t, uint32_t, uint32_t, const char*, const char*, uint32_t*)':
plink_data.c:643:101: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, ftype_str);
^
plink_data.c:733:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Comma-containing allele code on line %" PRIuPTR " of %s.\n", line_idx, ftype_str);
^
plink_data.c:1176:114: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid centimorgan position on line %" PRIuPTR " of %s.\n", line_idx, ftype_str);
^
In file included from plink_data.c:1:0:
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_data.c:1309:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " variant%s loaded from %s.\n", unfiltered_marker_ct - marker_exclude_ct, (unfiltered_marker_ct == marker_exclude_ct + 1)? "" : "s", ftype_str);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:1332:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Unsupported column order specified on line %" PRIuPTR " of %s.\n", line_idx, ftype_str);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:1336:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Invalid bp coordinate on line %" PRIuPTR " of %s.\n", line_idx, ftype_str);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:1340:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, ftype_str);
^
plink_data.c: In function 'int32_t load_covars(char*, long unsigned int, long unsigned int*, long unsigned int, long unsigned int*, long unsigned int*, char*, long unsigned int, double, uint32_t, Range_list*, uint32_t, long unsigned int*, char**, long unsigned int*, long unsigned int*, long unsigned int**, double**, long unsigned int**, long unsigned int**)':
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:1487:2: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of --covar file is pathologically long.\n", line_idx);
^
plink_data.c:1650:98: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --covar file is pathologically long.\n", line_idx);
^
plink_data.c:1749:140: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--covar: 1 C/C cov. loaded for --gxe, %" PRIuPTR "/%" PRIuPTR " for other operations.\n", covar_ct, covar_raw_ct);
^
plink_data.c:1749:140: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
plink_data.c:1751:115: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--covar: %" PRIuPTR " out of %" PRIuPTR " covariates loaded.\n", covar_ct, covar_raw_ct);
^
plink_data.c:1751:115: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
plink_data.c:1754:107: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--covar: %" PRIuPTR " covariate%s loaded.\n", covar_ct, (covar_ct == 1)? "" : "s");
^
In file included from plink_data.c:1:0:
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_data.c:1762:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " %s had missing value(s)%s", missing_cov_ct, species_str(missing_cov_ct), ulii? ", and " : ".\n");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_data.c:1765:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " %s %s not seen in the covariate file.\n", ulii, species_str(ulii), (ulii == 1)? "was" : "were");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_data.c:1806:2: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--no-const-covar: %" PRIuPTR " constant covariate%s excluded.\n", covar_ctx - uii, (covar_ctx - uii == 1)? "" : "s");
^
plink_data.c:1851:108: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Fewer tokens than expected on line %" PRIuPTR " of --covar file.\n", line_idx);
^
plink_data.c: In function 'int32_t zero_cluster_init(char*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int, uint32_t*, long unsigned int, uint32_t*, uint32_t*, char*, long unsigned int, uint32_t**, long unsigned int**)':
plink_data.c:2353:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --zero-cluster file is pathologically long.\n", line_idx);
^
In file included from plink_data.c:1:0:
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_data.c:2442:3: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--zero-cluster: %" PRIuPTR " line%s processed.\n", zc_item_ct, (zc_item_ct == 1)? "" : "s");
^
plink_data.c:2454:116: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --zero-cluster file has fewer tokens than expected.\n", line_idx);
^
plink_data.c: In function 'int32_t update_marker_chroms(Two_col_params*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, uint32_t, Chrom_info*, int64_t*)':
plink_data.c:2709:105: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --update-chr file is pathologically long.\n", line_idx);
^
plink_data.c:2758:179: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-chr: %" PRIuPTR " value%s updated, %" PRIuPTR " variant ID%s not present.\n", hit_ct, (hit_ct == 1)? "" : "s", miss_ct, (miss_ct == 1)? "" : "s");
^
plink_data.c:2758:179: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_data.c:2760:105: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-chr: %" PRIuPTR " value%s updated.\n", hit_ct, (hit_ct == 1)? "" : "s");
^
plink_data.c:2772:114: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --update-chr file has fewer tokens than expected.\n", line_idx);
^
plink_data.c: In function 'int32_t flip_subset_init(char*, char*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, char**, long unsigned int, long unsigned int*, long unsigned int, uint32_t*, char*, long unsigned int, long unsigned int*, long unsigned int*)':
plink_data.c:3087:102: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --flip file is pathologically long.\n", line_idx);
^
plink_data.c:3103:137: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid alleles (not reverse complement single bases) on line\n%" PRIuPTR " of --flip file.\n", line_idx);
^
plink_data.c:3139:109: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --flip-subset file is pathologically long.\n", line_idx);
^
In file included from plink_data.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:3168:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Warning: %" PRIuPTR " --flip-subset line%s skipped.\n", miss_ct, (miss_ct == 1)? "" : "s");
^
plink_data.c: In function 'int32_t load_fam(char*, uint32_t, uint32_t, int32_t, uint32_t, long unsigned int*, char**, long unsigned int*, char**, long unsigned int*, char**, long unsigned int*, long unsigned int**, long unsigned int**, uint32_t*, long unsigned int**, long unsigned int**, double**, long unsigned int**, long unsigned int**, uint32_t)':
plink_data.c:3864:95: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .fam file is pathologically long.\n", line_idx);
^
plink_data.c:3882:91: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid IID '0' on line %" PRIuPTR " of .fam file.\n", line_idx);
^
plink_data.c:4080:106: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .fam file has fewer tokens than expected.\n", line_idx);
^
plink_data.c: In function 'int32_t oxford_to_bed(char*, char*, char*, char*, char*, char*, double, char*, int32_t, uint64_t, uint32_t, Chrom_info*)':
plink_data.c:4403:97: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid sex code on line %" PRIuPTR " of .sample file.\n", line_idx);
^
In file included from plink_data.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:4503:6: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .gen file is pathologically long.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:5169:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .gen file has an invalid dosage value.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:5173:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .gen file has fewer tokens than expected.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:5177:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .sample file has fewer tokens than expected.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:5181:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .sample file is pathologically long.\n", line_idx);
^
plink_data.c: In function 'int32_t ped_to_bed_multichar_allele(FILE**, FILE**, char*, char*, FILE**, long unsigned int, long unsigned int*, long unsigned int, char*, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t*, int64_t, char*)':
plink_data.c:5450:102: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .ped file is pathologically long.\n", line_idx);
^
plink_data.c:5540:107: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .ped file has more tokens than expected.\n", line_idx);
^
plink_data.c:5596:142: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Warning: Variant %" PRIuPTR " %sallelic; setting rarest alleles missing.\n", marker_idx + 1, (uii? "quad" : "tri"));
^
plink_data.c:5676:177: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Performing single-pass .bed write (%" PRIuPTR " variant%s, %" PRIuPTR " %s).\n", marker_ct, (marker_ct == 1)? "" : "s", sample_ct, species_str(sample_ct));
^
plink_data.c:5676:177: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_data.c:5689:215: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Performing %u-pass .bed write (%u/%" PRIuPTR " variant%s/pass, %" PRIuPTR " %s).\n", pass_ct, markers_per_pass, marker_ct, (markers_per_pass == 1)? "" : "s", sample_ct, species_str(sample_ct));
^
plink_data.c:5689:215: warning: format '%u' expects argument of type 'unsigned int', but argument 7 has type 'long unsigned int' [-Wformat=]
In file included from plink_data.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:5864:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Half-missing call in .ped file at variant %" PRIuPTR ", line %" PRIuPTR ".\n", marker_uidx + 1, line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:5864:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Half-missing call in .ped file at variant %" PRIuPTR ", line %" PRIuPTR ".\n", marker_uidx + 1, line_idx);
^
plink_data.c:5869:106: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .ped file has fewer tokens than expected.\n", line_idx);
^
plink_data.c: In function 'int32_t ped_to_bed(char*, char*, char*, char*, uint32_t, uint64_t, int32_t, Chrom_info*)':
plink_data.c:5985:95: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .map file is pathologically long.\n", line_idx);
^
plink_data.c:6008:99: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid bp coordinate on line %" PRIuPTR " of .map file.\n", line_idx);
^
plink_data.c:6099:97: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .ped file is pathologically long.\n", line_idx);
^
plink_data.c:6125:104: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .ped file has a pathologically long token.\n", line_idx);
^
plink_data.c:6193:104: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .ped file has more tokens than expected.\n", line_idx);
^
plink_data.c:6258:138: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Warning: Variant %" PRIuPTR " %sallelic; setting rarest alleles missing.\n", marker_idx + 1, (cc? "quad" : "tri"));
^
plink_data.c:6339:174: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Performing single-pass .bed write (%" PRIuPTR " variant%s, %" PRIuPTR " %s).\n", marker_ct, (marker_ct == 1)? "" : "s", sample_ct, species_str(sample_ct));
^
plink_data.c:6339:174: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_data.c:6352:212: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Performing %u-pass .bed write (%u/%" PRIuPTR " variant%s/pass, %" PRIuPTR " %s).\n", pass_ct, markers_per_pass, marker_ct, (markers_per_pass == 1)? "" : "s", sample_ct, species_str(sample_ct));
^
plink_data.c:6352:212: warning: format '%u' expects argument of type 'unsigned int', but argument 7 has type 'long unsigned int' [-Wformat=]
In file included from plink_data.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:6519:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .map file has fewer tokens than expected.\n", line_idx);
^
plink_data.c:6524:106: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .ped file has fewer tokens than expected.\n", line_idx);
^
plink_data.c: In function 'int32_t lgen_to_bed(char*, char*, char*, char*, char*, int32_t, uint64_t, uint32_t, char*, Chrom_info*)':
plink_data.c:6701:97: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .ref file is pathologically long.\n", line_idx);
^
plink_data.c:6713:103: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .ref file has fewer tokens than expected.\n", line_idx);
^
plink_data.c:6825:104: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid compound genotype on line %" PRIuPTR " of .lgen file.\n", line_idx);
^
In file included from plink_data.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:7113:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .lgen file is pathologically long.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:7117:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Half-missing genotype on line %" PRIuPTR " of .lgen file.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:7121:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Sample ID on line %" PRIuPTR " of .lgen file is missing from .fam file.\n", line_idx);
^
plink_data.c:7125:107: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .lgen file has fewer tokens than expected.\n", line_idx);
^
plink_data.c: In function 'int32_t transposed_to_bed(char*, char*, char*, char*, uint64_t, Chrom_info*)':
plink_data.c:7275:96: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .tfam file is pathologically long.\n", line_idx);
^
plink_data.c:7351:100: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .tped file has excessive whitespace.\n", line_idx);
^
plink_data.c:7364:192: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .tped file has an excessively long\nchromosome/contig name. (The " PROG_NAME_CAPS " limit is " MAX_ID_SLEN_STR " characters.)\n", line_idx);
^
plink_data.c:7366:179: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .tped file has an excessively long variant ID.\n(The " PROG_NAME_CAPS " limit is " MAX_ID_SLEN_STR " characters.)\n", line_idx);
^
plink_data.c:7371:123: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .tped file has an excessively long centimorgan\nposition.\n", line_idx);
^
plink_data.c:7373:115: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .tped file has an excessively long bp coordinate.\n", line_idx);
^
plink_data.c:7375:102: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .tped file has excessive whitespace.\n", line_idx);
^
plink_data.c:7400:102: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .tped file has an invalid bp coordinate.\n", line_idx);
^
In file included from plink_data.c:1:0:
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_data.c:7574:2: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("Note: Variant %" PRIuPTR " is %sallelic. Setting rarest alleles to missing.\n", marker_ct - 1, allele_cts[3]? "quad" : "tri");
^
plink_data.c:7759:106: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid centimorgan position on line %" PRIuPTR " of .tped file\n", line_idx);
^
In file included from plink_data.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:7876:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .tped file has fewer tokens than expected.\n", line_idx);
^
plink_data.c:7883:100: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .tped file has a half-missing call.\n", line_idx);
^
In file included from plink_data.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:7891:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: More than four alleles at variant %" PRIuPTR ".\n", marker_ct - 1);
^
plink_data.c: In function 'int32_t vcf_to_bed(char*, char*, char*, int32_t, uint64_t, char*, char, char, double, char*, double, double, uint32_t, Chrom_info*)':
plink_data.c:8308:105: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid variant bp coordinate on line %" PRIuPTR " of .vcf file.\n", line_idx);
^
plink_data.c:8328:103: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid alternate allele on line %" PRIuPTR " of .vcf file.\n", line_idx);
^
plink_data.c:8338:112: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: ALT allele duplicates REF allele on line %" PRIuPTR " of .vcf file.\n", line_idx);
^
plink_data.c:8350:95: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Malformed ALT field on line %" PRIuPTR " of .vcf file.\n", line_idx);
^
plink_data.c:8367:96: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid QUAL value on line %" PRIuPTR " of .vcf file.\n", line_idx);
^
In file included from plink_data.c:1:0:
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_data.c:9005:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("(%" PRIuPTR " variant%s skipped.)\n", marker_skip_ct, (marker_skip_ct == 1)? "" : "s");
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:9008:7: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Warning: %" PRIuPTR " variant record%s had no GT field.\n", missing_gt_ct, (missing_gt_ct == 1)? "" : "s");
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:9026:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .vcf file has a GT half-call.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:9034:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .vcf file has an improperly formatted GP field.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:9039:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .vcf file has an invalid GT field.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:9044:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of .vcf file has fewer tokens than expected.\n", line_idx);
^
plink_data.c:9048:98: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of .vcf file is pathologically long.\n", line_idx);
^
In file included from plink_data.c:1:0:
plink_data.c: In function 'int32_t bcf_to_bed(char*, char*, char*, int32_t, uint64_t, char*, char, char, double, char*, Chrom_info*)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_data.c:9991:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("(%" PRIuPTR " variant%s skipped.)\n", marker_skip_ct, (marker_skip_ct == 1)? "" : "s");
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:9994:7: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Warning: %" PRIuPTR " variant record%s had no GT field.\n", missing_gt_ct, (missing_gt_ct == 1)? "" : "s");
^
plink_data.c: In function 'int32_t bed_from_23(char*, char*, char*, uint32_t, char*, char*, double, uint64_t, char*, char*, Chrom_info*)':
plink_data.c:10113:101: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, infile_name);
^
In file included from plink_data.c:1:0:
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_data.c:10130:2: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s has more allele calls than expected.\n", line_idx, infile_name);
^
plink_data.c:10135:105: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid chromosome code on line %" PRIuPTR " of %s.\n", line_idx, infile_name);
^
In file included from plink_data.c:1:0:
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_data.c:10199:6: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Nonmissing female allele call on line %" PRIuPTR " of %s.\n", line_idx, infile_name);
^
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_data.c:10324:5: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, infile_name);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_data.c:10328:5: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s has fewer allele calls than expected.\n", line_idx, infile_name);
^
plink_data.c: In function 'int32_t generate_dummy(char*, char*, uint32_t, long unsigned int, long unsigned int, double, double, int32_t)':
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_data.c:10552:3: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("Dummy data (%" PRIuPTR " %s, %" PRIuPTR " SNP%s) written to %s.bed + %s.bim + %s.fam .\n", sample_ct, species_str(sample_ct), marker_ct, (marker_ct == 1)? "" : "s", outname, outname, outname);
^
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_data.c:10552:3: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("Dummy data (%" PRIuPTR " %s, %" PRIuPTR " SNP%s) written to %s.bed + %s.bim + %s.fam .\n", sample_ct, species_str(sample_ct), marker_ct, (marker_ct == 1)? "" : "s", outname, outname, outname);
^
plink_data.c: In function 'int32_t simulate_dataset(char*, char*, uint32_t, char*, uint32_t, uint32_t, double, uint32_t, double, char*)':
plink_data.c:11036:127: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --simulate%s file is pathologically long.\n", line_idx, is_qt? "-qt" : "");
^
plink_data.c:11044:131: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid SNP count on line %" PRIuPTR " of --simulate%s input file.\n", line_idx, is_qt? "-qt" : "");
^
plink_data.c:11081:135: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --simulate%s file has fewer tokens than expected.\n", line_idx, is_qt? "-qt" : "");
^
plink_data.c:11085:134: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --simulate%s file has more tokens than expected.\n", line_idx, is_qt? "-qt" : "");
^
plink_data.c:11097:139: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid allele frequency bound on line %" PRIuPTR " of --simulate%s\nfile.\n", line_idx, is_qt? "-qt" : "");
^
plink_data.c:11103:141: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid marker allele frequency bound on line %" PRIuPTR " of\n--simulate%s file.\n", line_idx, is_qt? "-qt" : "");
^
plink_data.c:11107:124: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid d-prime on line %" PRIuPTR " of --simulate%s input file.\n", line_idx, is_qt? "-qt" : "");
^
plink_data.c:11115:107: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid variance value on line %" PRIuPTR " of --simulate-qt file.\n", line_idx);
^
plink_data.c:11119:134: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Nonzero variance with fixed 0/1 allele frequency on line %" PRIuPTR " of\n--simulate-qt file.\n", line_idx);
^
plink_data.c:11129:119: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid dominance deviation value on line %" PRIuPTR " of --simulate-qt\nfile.\n", line_idx);
^
plink_data.c:11134:122: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid heterozygote disease odds ratio on line %" PRIuPTR " of\n--simulate file.\n", line_idx);
^
plink_data.c:11140:120: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid homozygote disease odds ratio on line %" PRIuPTR " of --simulate\nfile.\n", line_idx);
^
plink_data.c: In function 'int32_t recode_allele_load(char*, long unsigned int, char*, char***, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, char**, long unsigned int, long unsigned int*, char*)':
plink_data.c:11540:111: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --recode-allele file is pathologically long.\n", line_idx);
^
plink_data.c:11550:119: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --recode-allele file has fewer tokens than expected.\n", line_idx);
^
plink_data.c: In function 'int32_t sample_sort_file_map(char*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, uint32_t**)':
plink_data.c:14438:108: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --indiv-sort file is pathologically long.\n", line_idx);
^
plink_data.c:14446:116: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --indiv-sort file has fewer tokens than expected.\n", line_idx);
^
In file included from plink_data.c:1:0:
plink_data.c: In function 'int32_t merge_fam_id_scan(char*, char*, uint32_t, long unsigned int*, uint32_t*, uint32_t*, Ll_fam**, uint64_t*, uint32_t*, uint32_t*, uint32_t*)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_data.c:14612:2: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, famname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_data.c:14732:5: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, famname);
^
plink_data.c: In function 'int32_t merge_bim_scan(char*, uint32_t, uint32_t, long unsigned int*, Ll_bim**, uint32_t*, uint64_t*, uint32_t*, uint64_t*, Ll_str**, uint32_t, Chrom_info*)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_data.c:14815:4: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, bimname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_data.c:14859:2: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Invalid bp coordinate on line %" PRIuPTR " of %s.\n", line_idx, bimname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_data.c:14877:6: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Identical A1 and A2 alleles on line %" PRIuPTR " of %s.\n", line_idx, bimname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_data.c:15036:5: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, bimname);
^
plink_data.c: In function 'int32_t report_non_biallelics(char*, char*, Ll_str*)':
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_data.c:15102:3: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: %" PRIuPTR " variant%s with 3+ alleles present.\n* If you believe this is due to strand inconsistency, try --flip with\n %s.\n (Warning: if this seems to work, strand errors involving SNPs with A/T or C/G\n alleles probably remain in your data. If LD between nearby SNPs is high,\n --flip-scan should detect them.)\n* If you are dealing with genuine multiallelic variants, we recommend exporting\n that subset of the data to VCF (via e.g. '--recode vcf'), merging with\n another tool/script, and then importing the result; PLINK is not yet suited\n to handling them.\n", nbmarker_ct, (nbmarker_ct == 1)? "" : "s", outname);
^
plink_data.c: In function 'int32_t merge_main(char*, char*, char*, char*, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, char**, char*, long unsigned int, char*, long unsigned int, uint32_t, uint32_t*, uint32_t*, uint32_t*, char*, unsigned char*, unsigned char*, uint32_t, long unsigned int*, FILE*, uint64_t*, uint64_t*, uint64_t*, uint32_t)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_data.c:15889:2: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s has more tokens than expected.\n", line_idx, bedname);
^
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_data.c:15922:5: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Error: Line %" PRIuPTR " of %s has a half-missing call.\n", line_idx, bedname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_data.c:15926:5: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, bedname);
^
plink_data.c: In function 'int32_t merge_datasets(char*, char*, char*, char*, char*, char*, char*, char*, char*, uint64_t, uint32_t, uint32_t, uint64_t, Chrom_info*)':
plink_data.c:16048:103: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --merge-list file is pathologically long.\n", line_idx);
^
plink_data.c:16057:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --merge-list file has more tokens than expected.\n", line_idx);
^
plink_data.c:16064:122: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --merge-list file has an excessively long fileset\nprefix.\n", line_idx);
^
plink_data.c:16073:117: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --merge-list file has an excessively long filename.\n", line_idx);
^
plink_data.c:16594:219: warning: format '%u' expects argument of type 'unsigned int', but argument 6 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Performing %u-pass merge (%u %s, %" PRIuPTR "/%u variant%s per pass).\n", pass_ct, tot_sample_ct, species_str(tot_sample_ct), markers_per_pass, dedup_marker_ct, (dedup_marker_ct == 1)? "" : "s");
^
plink_data.c:16634:80: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
printf("\rPass %u: fileset #%" PRIuPTR " complete.", uii + 1, mlpos + 1);
^
plink_dosage.c: In function 'int32_t dosage_load_score_files(Score_info*, char*, char*, uint32_t, long unsigned int*, long unsigned int*, char**, char***, double**, long unsigned int**, double**, long unsigned int*, long unsigned int*, char**, double**)':
plink_dosage.c:162:105: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --score file is pathologically long.\n", line_idx);
^
plink_dosage.c:238:105: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --score file is pathologically long.\n", line_idx);
^
In file included from plink_dosage.c:1:0:
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_dosage.c:297:3: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("--score: %" PRIuPTR " entr%s loaded from %s.\n", score_marker_ct, (score_marker_ct == 1)? "y" : "ies", sc_ip->fname);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_dosage.c:299:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Warning: %" PRIuPTR " line%s skipped.\n", miss_ct, (miss_ct == 1)? "" : "s");
^
plink_dosage.c:350:113: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --q-score-range data file is pathologically long.\n", line_idx);
^
In file included from plink_dosage.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_dosage.c:364:7: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Warning: %" PRIuPTR " line%s skipped in --q-score-range data file.\n", miss_ct, (miss_ct == 1)? "" : "s");
^
plink_dosage.c:374:119: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --q-score-range range file is pathologically long.\n", line_idx);
^
plink_dosage.c:389:128: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Excessively long range name on line %" PRIuPTR " of --q-score-range range\nfile.\n", line_idx);
^
In file included from plink_dosage.c:1:0:
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_dosage.c:435:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--q-score-range: %" PRIuPTR " range%s loaded.\n", qrange_ct, (qrange_ct == 1)? "" : "s");
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_dosage.c:450:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of --q-score-range data file has fewer tokens than\nexpected.\n", line_idx);
^
plink_dosage.c:454:109: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --score file has fewer tokens than expected.\n", line_idx);
^
In file included from plink_dosage.c:1:0:
plink_dosage.c: In function 'int32_t plink1_dosage(Dosage_info*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, char*, Two_col_params*, Two_col_params*, Two_col_params*, char*, char*, char*, char*, char*, char*, char*, char*, double, double, double, uint32_t, uint32_t, uint32_t, uint32_t, int32_t, char*, uint32_t, uint32_t, Chrom_info*, double, double, uint64_t, uint64_t, uint32_t, uint32_t, Cluster_info*, int32_t, int32_t, int32_t, char*, char*, char*, Range_list*, uint32_t, Range_list*, uint32_t, uint32_t, double, double, int32_t, Score_info*)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_dosage.c:718:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " %s (%u male%s, %u female%s, %u ambiguous) loaded from .fam.\n", unfiltered_sample_ct, species_str(unfiltered_sample_ct), uii, (uii == 1)? "" : "s", ujj, (ujj == 1)? "" : "s", gender_unk_ct);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_dosage.c:724:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " %s (%d male%s, %d female%s) loaded from .fam.\n", unfiltered_sample_ct, species_str(unfiltered_sample_ct), uii, (uii == 1)? "" : "s", ujj, (ujj == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_dosage.c:804:4: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--extract range: %" PRIuPTR " variant%s remaining.\n", uljj, (uljj == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_dosage.c:823:4: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--exclude range: %" PRIuPTR " variant%s remaining.\n", uljj, (uljj == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_dosage.c:936:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%s--prune: %" PRIuPTR " %s remaining.\n", uii? "Automatic " : "", unfiltered_sample_ct - sample_exclude_ct, species_str(unfiltered_sample_ct == sample_exclude_ct + 1));
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_dosage.c:1077:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " variant%s and %" PRIuPTR " %s pass filters and QC.\n", marker_ct, (marker_ct == 1)? "" : "s", sample_ct, species_str(sample_ct));
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_dosage.c:1077:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " variant%s and %" PRIuPTR " %s pass filters and QC.\n", marker_ct, (marker_ct == 1)? "" : "s", sample_ct, species_str(sample_ct));
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_dosage.c:1079:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " %s pass%s filters and QC.\n", sample_ct, species_str(sample_ct), (sample_ct == 1)? "es" : "");
^
plink_dosage.c:1090:346: warning: format '%u' expects argument of type 'unsigned int', but argument 7 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Among remaining phenotypes, %u %s and %u %s. (%" PRIuPTR " phenotype%s missing.)\n", pheno_nm_ct - pheno_ctrl_ct, (pheno_nm_ct - pheno_ctrl_ct == 1)? "is a case" : "are cases", pheno_ctrl_ct, (pheno_ctrl_ct == 1)? "is a control" : "are controls", sample_ct - pheno_nm_ct, (sample_ct - pheno_nm_ct == 1)? " is" : "s are");
^
plink_dosage.c:1189:107: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid batch number on line %" PRIuPTR " of --dosage list file.\n", line_idx);
^
plink_dosage.c:1195:121: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --dosage list file has fewer tokens than expected.\n", line_idx);
^
plink_dosage.c:1207:121: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --dosage list file has fewer tokens than expected.\n", line_idx);
^
plink_dosage.c:1218:111: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --dosage list file has more tokens than expected.\n", line_idx);
^
plink_dosage.c:1231:111: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --dosage list file is pathologically long.\n", line_idx);
^
plink_dosage.c:1584:156: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, &(sep_fnames[(file_idx + file_idx_start) * max_sepheader_len]));
^
plink_dosage.c:1592:171: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, &(sep_fnames[(file_idx + file_idx_start) * max_sepheader_len]));
^
In file included from plink_dosage.c:1:0:
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_dosage.c:1710:2: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Warning: %" PRIuPTR " sample ID%s present in .fam file but missing from dosage file%s.\n", ulii, (ulii == 1)? "" : "s", (cur_batch_size == 1)? "" : "s");
^
plink_dosage.c:1745:155: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s has an excessively long variant ID.\n", line_idx, &(fnames[(file_idx + file_idx_start) * max_fn_len]));
^
plink_dosage.c:1790:235: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Variant ID mismatch between line %" PRIuPTR " of %s and line %" PRIuPTR " of %s.\n", line_idx_arr[0], &(fnames[file_idx_start * max_fn_len]), line_idx, &(fnames[(file_idx + file_idx_start) * max_fn_len]));
^
plink_dosage.c:1790:235: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_dosage.c:1794:236: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Allele code mismatch between line %" PRIuPTR " of %s and line %" PRIuPTR " of %s.\n", line_idx_arr[0], &(fnames[file_idx_start * max_fn_len]), line_idx, &(fnames[(file_idx + file_idx_start) * max_fn_len]));
^
plink_dosage.c:1794:236: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
In file included from plink_dosage.c:1:0:
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_dosage.c:2297:7: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, &(fnames[(file_idx + file_idx_start) * max_fn_len]));
^
plink_dosage.c:2304:152: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, &(fnames[(file_idx + file_idx_start) * max_fn_len]));
^
In file included from plink_family.c:1:0:
plink_family.c: In function 'int32_t mendel_error_scan(Family_info*, FILE*, long unsigned int, char*, char*, uint32_t, uint32_t, uint32_t, uint32_t, long unsigned int, long unsigned int*, long unsigned int*, long unsigned int*, char*, long unsigned int, char**, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int*, char*, long unsigned int, char*, long unsigned int, char*, long unsigned int, uint32_t, Chrom_info*, uint32_t)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_family.c:1206:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%u variant%s and %" PRIuPTR " %s excluded.\n", new_marker_exclude_ct, (new_marker_exclude_ct == 1)? "" : "s", ulii, species_str(ulii));
^
plink_family.c: In function 'int32_t tdt_poo(pthread_t*, FILE*, long unsigned int, char*, char*, double, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, uint32_t, char**, long unsigned int, long unsigned int*, long unsigned int, long unsigned int*, long unsigned int*, uint32_t*, uint32_t, Aperm_info*, uint32_t, char*, long unsigned int, Chrom_info*, uint32_t, Family_info*, long unsigned int*, long unsigned int*, char*, double*, uint32_t*, long unsigned int)':
plink_family.c:1921:36: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\b\b%" PRIuPTR "%%", pct);
^
plink_family.c: In function 'int32_t tdt(pthread_t*, FILE*, long unsigned int, char*, char*, double, double, double, double, uint32_t, double, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, uint32_t, uint32_t*, char**, long unsigned int, long unsigned int*, long unsigned int, long unsigned int*, long unsigned int, Aperm_info*, uint32_t, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int*, char*, long unsigned int, char*, long unsigned int, char*, long unsigned int, Chrom_info*, uint32_t, Family_info*)':
plink_family.c:2449:36: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\b\b%" PRIuPTR "%%", pct);
^
In file included from plink_family.c:1:0:
plink_family.c: In function 'int32_t qfam(pthread_t*, FILE*, long unsigned int, char*, char*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, uint32_t, uint32_t*, char**, long unsigned int*, long unsigned int, long unsigned int*, long unsigned int, Aperm_info*, long unsigned int*, double*, long unsigned int*, long unsigned int*, long unsigned int*, char*, long unsigned int, char*, long unsigned int, char*, long unsigned int, Chrom_info*, uint32_t, uint32_t, Family_info*)':
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_family.c:5640:3: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("--qfam-%s: Permuting %" PRIuPTR " families/singletons, and including %u %s in linear regression.\n", flag_suffix, fss_ct, lm_ct, g_species_plural);
^
plink_filter.c: In function 'int32_t keep_or_remove(char*, char*, long unsigned int, long unsigned int, uint32_t*, long unsigned int, long unsigned int*, long unsigned int*, uint32_t, uint32_t)':
plink_filter.c:86:132: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --%s file is pathologically long.\n", line_idx, keep_or_remove_flag_str(flags));
^
plink_filter.c:95:135: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --%s file has fewer tokens than expected.\n", line_idx, keep_or_remove_flag_str(flags));
^
In file included from plink_filter.c:1:0:
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_filter.c:151:3: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--%s: %" PRIuPTR " %s remaining.\n", keep_or_remove_flag_str(flags), unfiltered_ct, species_str(unfiltered_ct));
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_filter.c:154:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Warning: At least %" PRIuPTR " duplicate ID%s in --%s file.\n", duplicate_ct, (duplicate_ct == 1)? "" : "s", keep_or_remove_flag_str(flags));
^
plink_filter.c: In function 'int32_t extract_exclude_flag_norange(char*, uint32_t*, uint32_t, uint32_t, char*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, uint32_t)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_filter.c:320:3: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--%s: %" PRIuPTR " variant%s remaining.\n", do_exclude? "exclude" : "extract", unfiltered_marker_ct, (unfiltered_marker_ct == 1)? "" : "s");
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_filter.c:323:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Warning: At least %" PRIuPTR " duplicate ID%s in --%s file.\n", duplicate_ct, (duplicate_ct == 1)? "" : "s", do_exclude? "exclude" : "extract");
^
plink_filter.c: In function 'int32_t filter_attrib(char*, char*, uint32_t*, uint32_t, uint32_t, char*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*)':
plink_filter.c:502:98: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR" of --attrib file is pathologically long.\n", line_idx);
^
In file included from plink_filter.c:1:0:
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_filter.c:552:3: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--attrib: %" PRIuPTR " variant%s remaining.\n", include_ct, (include_ct == 1)? "" : "s");
^
plink_filter.c: In function 'int32_t filter_attrib_sample(char*, char*, char*, long unsigned int, long unsigned int, uint32_t*, long unsigned int, uint32_t, long unsigned int*, long unsigned int*)':
plink_filter.c:731:104: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR" of --attrib-indiv file is pathologically long.\n", line_idx);
^
plink_filter.c:741:119: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --attrib-indiv file has fewer tokens than\nexpected.\n", line_idx);
^
In file included from plink_filter.c:1:0:
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_filter.c:786:3: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--attrib-indiv: %" PRIuPTR " %s remaining.\n", include_ct, species_str(include_ct));
^
plink_filter.c: In function 'int32_t filter_qual_scores(Two_col_params*, double, double, uint32_t*, uint32_t, uint32_t, char*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*)':
plink_filter.c:865:111: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --qual-scores file is pathologically long.\n", line_idx);
^
plink_filter.c:916:176: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--qual-scores: %" PRIuPTR " variant%s remaining, %" PRIuPTR " ID%s missing.\n", marker_ct, (marker_ct == 1)? "" : "s", miss_ct, (miss_ct == 1)? "" : "s");
^
plink_filter.c:916:176: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_filter.c:918:114: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--qual-scores: %" PRIuPTR " variant%s remaining.\n", marker_ct, (marker_ct == 1)? "" : "s");
^
plink_filter.c:929:115: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --qual-scores file has fewer tokens than expected.\n", line_idx);
^
In file included from plink_filter.c:1:0:
plink_filter.c: In function 'int32_t load_oblig_missing(FILE*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, char*, long unsigned int, long unsigned int, uint32_t*, long unsigned int, long unsigned int*, Chrom_info*, Oblig_missing_info*)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_filter.c:1148:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, om_ip->sample_fname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_filter.c:1156:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, om_ip->sample_fname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_filter.c:1268:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, om_ip->marker_fname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_filter.c:1281:9: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, om_ip->marker_fname);
^
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_filter.c:1305:5: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Warning: %" PRIuPTR " entr%s in %s had block IDs missing from %s.\n", missing_cluster_ct, (missing_cluster_ct == 1)? "y" : "ies", om_ip->marker_fname, om_ip->sample_fname);
^
plink_filter.c: In function 'int32_t filter_samples_file(char*, char*, long unsigned int, long unsigned int, uint32_t*, long unsigned int, long unsigned int*, long unsigned int*, char*, uint32_t, uint32_t)':
plink_filter.c:1411:104: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --filter file is pathologically long.\n", line_idx);
^
In file included from plink_filter.c:1:0:
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_filter.c:1446:3: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--filter: %" PRIuPTR " %s remaining.\n", include_ct, species_str(include_ct));
^
plink_filter.c:1461:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --filter file has fewer tokens than expected.\n", line_idx);
^
plink_glm.c: In function 'int32_t glm_scan_conditions(char*, char*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, Chrom_info*, uint32_t, long unsigned int*, FILE*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int*, uint32_t**, long unsigned int*, long unsigned int*)':
plink_glm.c:151:114: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --condition-list file is pathologically long.\n", line_idx);
^
plink_glm.c:185:200: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--condition-list: %" PRIuPTR " of %" PRIuPTR " variant ID%s loaded from %s.\n", condition_ct, condition_ct + miss_ct, (condition_ct + miss_ct == 1)? "" : "s", condition_fname);
^
plink_glm.c:185:200: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
plink_glm.c:187:150: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--condition-list: %" PRIuPTR " variant ID%s loaded from %s.\n", condition_ct, (condition_ct == 1)? "" : "s", condition_fname);
^
In file included from plink_homozyg.c:1:0:
plink_homozyg.c: In function 'int32_t calc_homozyg(Homozyg_info*, FILE*, long unsigned int, uint32_t, long unsigned int, long unsigned int*, char*, long unsigned int, uint32_t, char**, long unsigned int, long unsigned int*, Chrom_info*, uint32_t*, long unsigned int, long unsigned int, long unsigned int*, char*, uint32_t, uint32_t, long unsigned int, char*, char*, long unsigned int*, long unsigned int*, double*, char*, long unsigned int*)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_homozyg.c:2685:3: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--homozyg: Scan complete, found %" PRIuPTR " ROH.\n", roh_ct);
^
In file included from plink_ld.c:1:0:
plink_ld.c: In function 'int32_t ld_prune(Ld_info*, FILE*, long unsigned int, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, char*, long unsigned int, Chrom_info*, double*, uint32_t*, long unsigned int, long unsigned int*, long unsigned int*, char*, char*, uint32_t)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:846:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--indep%s: Ignoring %" PRIuPTR " chromosome 0 variant%s.\n", pairwise? "-pairwise" : "", ulii, (ulii == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:1289:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("Pruned %" PRIuPTR " variant%s from chromosome %u, leaving %" PRIuPTR ".\n", cur_exclude_ct, (cur_exclude_ct == 1)? "" : "s", cur_chrom, chrom_end - chrom_start - popcount_bit_idx(marker_exclude, chrom_start, chrom_end) - cur_exclude_ct);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 6 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:1289:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("Pruned %" PRIuPTR " variant%s from chromosome %u, leaving %" PRIuPTR ".\n", cur_exclude_ct, (cur_exclude_ct == 1)? "" : "s", cur_chrom, chrom_end - chrom_start - popcount_bit_idx(marker_exclude, chrom_start, chrom_end) - cur_exclude_ct);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:1296:3: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("Pruning complete. %u of %" PRIuPTR " variants removed.\n", tot_exclude_ct, marker_ct);
^
plink_ld.c: In function 'int32_t flipscan(Ld_info*, FILE*, long unsigned int, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, char*, long unsigned int, uint32_t, char**, long unsigned int, Chrom_info*, double*, uint32_t*, long unsigned int, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int*, char*, char*, uint32_t)':
plink_ld.c:1850:40: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\b\b%" PRIuPTR "%%", pct);
^
plink_ld.c: In function 'int32_t ld_report_matrix(pthread_t*, Ld_info*, FILE*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, long unsigned int, long unsigned int*, uint32_t, uint32_t, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int*, char*, uint32_t)':
plink_ld.c:2531:34: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\b\b%" PRIuPTR "%%", pct);
^
plink_ld.c: In function 'int32_t ld_report_dprime(pthread_t*, Ld_info*, FILE*, long unsigned int, long unsigned int*, long unsigned int, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int*, char*, uint32_t, long unsigned int, long unsigned int)':
plink_ld.c:5553:34: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\b\b%" PRIuPTR "%%", pct);
^
plink_ld.c: In function 'int32_t ld_report_regular(pthread_t*, Ld_info*, FILE*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int, long unsigned int*, uint32_t, uint32_t, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int*, char*, uint32_t)':
plink_ld.c:6050:34: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\b\b%" PRIuPTR "%%", pct);
^
In file included from plink_ld.c:1:0:
plink_ld.c: In function 'int32_t show_tags(Ld_info*, FILE*, long unsigned int, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, char*, long unsigned int, uint32_t, uint32_t*, Chrom_info*, long unsigned int, long unsigned int*, long unsigned int*, char*, char*, uint32_t)':
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_ld.c:6301:2: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of --show-tags file is pathologically long.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_ld.c:6312:4: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of --show-tags file has fewer tokens than expected.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_ld.c:6347:7: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Warning: %" PRIuPTR " unrecognized variant ID%s in --show-tags file.\n", unrecog_ct, (unrecog_ct == 1)? "" : "s");
^
plink_ld.c:6555:45: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\b\b%" PRIuPTR "%%", pct);
^
In file included from plink_ld.c:1:0:
plink_ld.c: In function 'int32_t twolocus(Epi_info*, FILE*, long unsigned int, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, char*, long unsigned int, uint32_t, char**, Chrom_info*, long unsigned int, long unsigned int*, long unsigned int, long unsigned int*, uint32_t, uint32_t, long unsigned int*, long unsigned int*, char*, char*, uint32_t)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:8081:9: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("Solution #%" PRIuPTR ":\n", ulkk + 1 - ulii);
^
plink_ld.c: In function 'int32_t epistasis_linear_regression(pthread_t*, Epi_info*, FILE*, long unsigned int, long unsigned int, long unsigned int*, char*, long unsigned int, uint32_t, Chrom_info*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int, long unsigned int, long unsigned int, long unsigned int*, uint32_t, long unsigned int, uint64_t, long unsigned int, long unsigned int*, uint32_t, double*, uint32_t, uint32_t, char*, char*, double, double, long unsigned int*, long unsigned int*, double*, uint32_t*, uint32_t*, uint32_t*, uint32_t*)':
plink_ld.c:8693:41: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\b\b%" PRIuPTR "%%", pct);
^
plink_ld.c: In function 'int32_t epistasis_logistic_regression(pthread_t*, Epi_info*, FILE*, long unsigned int, long unsigned int, long unsigned int*, char*, long unsigned int, uint32_t, Chrom_info*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int, long unsigned int, long unsigned int, long unsigned int*, uint32_t, long unsigned int, uint64_t, long unsigned int, long unsigned int*, uint32_t, long unsigned int*, uint32_t, uint32_t, char*, char*, double, long unsigned int*, long unsigned int*, double*, uint32_t*, uint32_t*, uint32_t*, uint32_t*)':
plink_ld.c:9171:41: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\b\b%" PRIuPTR "%%", pct);
^
In file included from plink_ld.c:1:0:
plink_ld.c: In function 'int32_t epistasis_report(pthread_t*, Epi_info*, FILE*, long unsigned int, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, char*, long unsigned int, uint32_t*, uint32_t, Chrom_info*, long unsigned int, long unsigned int*, uint32_t, uint32_t, long unsigned int*, double*, uint32_t, uint32_t, char*, char*, double, double, Set_info*)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:9447:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--%sepistasis: Skipping %" PRIuPTR " monomorphic/non-autosomal site%s.\n", is_fast? "fast-" : "", marker_ct2 - ulii, (marker_ct2 - ulii == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:9449:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--%sepistasis: Skipping %" PRIuPTR " site%s due to --je-cellmin setting.\n", is_fast? "fast-" : "", marker_ct2 - ulii, (marker_ct2 - ulii == 1)? "" : "s");
^
plink_ld.c:10117:36: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'long unsigned int' [-Wformat=]
printf("\b\b%" PRIuPTR "%%", pct);
^
In file included from plink_ld.c:1:0:
plink_ld.c: In function 'int32_t indep_pairphase(Ld_info*, FILE*, long unsigned int, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, char*, long unsigned int, Chrom_info*, double*, uint32_t*, long unsigned int, long unsigned int*, long unsigned int*, char*, char*, uint32_t)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:10350:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--indep-pairphase: Ignoring %" PRIuPTR " chromosome 0 variant%s.\n", ulii, (ulii == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:10630:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("Pruned %" PRIuPTR " variant%s from chromosome %u, leaving %" PRIuPTR ".\n", cur_exclude_ct, (cur_exclude_ct == 1)? "" : "s", cur_chrom, chrom_end - chrom_start - popcount_bit_idx(marker_exclude, chrom_start, chrom_end) - cur_exclude_ct);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 6 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:10630:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("Pruned %" PRIuPTR " variant%s from chromosome %u, leaving %" PRIuPTR ".\n", cur_exclude_ct, (cur_exclude_ct == 1)? "" : "s", cur_chrom, chrom_end - chrom_start - popcount_bit_idx(marker_exclude, chrom_start, chrom_end) - cur_exclude_ct);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:10637:3: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("Pruning complete. %u of %" PRIuPTR " variants removed.\n", tot_exclude_ct, marker_ct);
^
plink_ld.c: In function 'int32_t epi_summary_merge(Epi_info*, char*, char*)':
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_ld.c:11082:5: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Error: Invalid N_SIG value on line %" PRIuPTR " of %s .\n", line_idx, inprefix);
^
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_ld.c:11086:5: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Error: Invalid N_SIG value on line %" PRIuPTR " of %s .\n", line_idx, inprefix);
^
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_ld.c:11090:5: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Error: Invalid BEST_CHISQ value on line %" PRIuPTR " of %s .\n", line_idx, inprefix);
^
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_ld.c:11094:5: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Error: Line %" PRIuPTR " of %s has fewer tokens than expected.\n", line_idx, inprefix);
^
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_ld.c:11098:5: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, inprefix);
^
plink_ld.c: In function 'int32_t test_mishap(FILE*, long unsigned int, char*, char*, double, long unsigned int, long unsigned int*, long unsigned int*, long unsigned int, char*, long unsigned int, uint32_t, char**, double, Chrom_info*, long unsigned int, long unsigned int*, long unsigned int)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:11529:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--test-mishap: %u loc%s checked (%" PRIuPTR " skipped).\n", inspected_ct, (inspected_ct == 1)? "us" : "i", marker_ct - inspected_ct);
^
plink_ld.c: In function 'int32_t set_test_common_init(pthread_t*, FILE*, long unsigned int, char*, char*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, long unsigned int*, double*, Set_info*, Chrom_info*, long unsigned int, long unsigned int*, long unsigned int*, uint32_t, uint32_t, const char*, long unsigned int*, long unsigned int**, long unsigned int**, uint32_t**, uint32_t***, long unsigned int*, uint32_t*, uint32_t***, double*, double**, double**, uint32_t**, uint32_t**, long unsigned int**, uint32_t**, uint32_t**, long unsigned int**)':
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_ld.c:12267:3: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("%s set test: Testing %" PRIuPTR " set%s with at least one significant variant.\n", flag_descrip, set_ct, (set_ct == 1)? "" : "s");
^
plink_ld.c: In function 'int32_t clump_reports(FILE*, long unsigned int, char*, char*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, uint32_t, uint32_t*, char**, long unsigned int*, Chrom_info*, long unsigned int, long unsigned int*, Clump_info*, long unsigned int*, uint32_t)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_ld.c:12862:4: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, fname_ptr);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_ld.c:12944:4: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, fname_ptr);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_ld.c:12976:2: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Negative p-value on line %" PRIuPTR " of %s.\n", line_idx, fname_ptr);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_ld.c:13002:6: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: p-value > 1 on line %" PRIuPTR " of %s.\n", line_idx, fname_ptr);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_ld.c:13893:7: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " top variant ID%s missing; see the end of the .clumped file.\n", missing_variant_ct, (missing_variant_ct == 1)? "" : "s");
^
plink_ld.c:13900:147: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
fprintf(stderr, "%" PRIuPTR " more top variant ID%s missing; see log file.\n", missing_variant_ct - 3, (missing_variant_ct == 4)? "" : "s");
^
plink_ld.c: In function 'void fepi_counts_to_joint_effects_stats(uint32_t, uint32_t*, double*, double*, double*)':
plink_ld.c:3262:24: warning: 'ivv[3]' may be used uninitialized in this function [-Wmaybe-uninitialized]
use_reg_stat = (ivv[3] > 0.5) && ((group_ct == 1) || (ivv[7] > 0.5));
^
plink_misc.c: In function 'int32_t makepheno_load(FILE*, char*, long unsigned int, char*, long unsigned int, uint32_t*, long unsigned int*, long unsigned int**)':
plink_misc.c:176:108: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --make-pheno file is pathologically long.\n", line_idx);
^
plink_misc.c:184:116: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --make-pheno file has fewer tokens than expected.\n", line_idx);
^
plink_misc.c: In function 'int32_t load_pheno(FILE*, long unsigned int, long unsigned int, char*, long unsigned int, uint32_t*, int32_t, uint32_t, uint32_t, char*, long unsigned int*, long unsigned int**, double**, char*, long unsigned int)':
plink_misc.c:273:98: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --pheno file is pathologically long.\n", line_idx);
^
plink_misc.c:338:115: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --pheno file has fewer tokens than expected.\n", line_idx);
^
plink_misc.c:403:109: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --pheno file has fewer tokens than expected.\n", line_idx);
^
plink_misc.c: In function 'int32_t apply_cm_map(char*, char*, long unsigned int, long unsigned int*, uint32_t*, double*, Chrom_info*)':
plink_misc.c:546:101: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --cm-map file is pathologically long.\n", line_idx);
^
plink_misc.c:559:103: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid bp coordinate on line %" PRIuPTR " of --cm-map file.\n", line_idx);
^
plink_misc.c:571:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid centimorgan position on line %" PRIuPTR " of --cm-map file.\n", line_idx);
^
plink_misc.c:578:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid recombination rate on line %" PRIuPTR " of --cm-map file.\n", line_idx);
^
In file included from plink_misc.c:1:0:
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_misc.c:603:2: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Warning: %" PRIuPTR " irregular line%s skipped in %s.\n", irreg_line_ct, (irreg_line_ct == 1)? "" : "s", fname_buf);
^
plink_misc.c:620:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --cm-map file has fewer tokens than expected.\n", line_idx);
^
plink_misc.c: In function 'int32_t update_marker_cms(Two_col_params*, uint32_t*, uint32_t, char*, long unsigned int, long unsigned int, double*)':
plink_misc.c:680:102: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --update-cm file is pathologically long.\n", line_idx);
^
plink_misc.c:717:116: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid centimorgan position on line %" PRIuPTR " of --update-cm file.\n", line_idx);
^
plink_misc.c:726:176: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-cm: %" PRIuPTR " value%s changed, %" PRIuPTR " variant ID%s not present.\n", hit_ct, (hit_ct == 1)? "" : "s", miss_ct, (miss_ct == 1)? "" : "s");
^
plink_misc.c:726:176: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_misc.c:728:102: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-cm: %" PRIuPTR " value%s changed.\n", hit_ct, (hit_ct == 1)? "" : "s");
^
plink_misc.c:739:113: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --update-cm file has fewer tokens than expected.\n", line_idx);
^
plink_misc.c: In function 'int32_t update_marker_pos(Two_col_params*, uint32_t*, uint32_t, char*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, uint32_t*, uint32_t*, Chrom_info*)':
plink_misc.c:806:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --update-map file is pathologically long.\n", line_idx);
^
plink_misc.c:843:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid bp coordinate on line %" PRIuPTR " of --update-map file.\n", line_idx);
^
plink_misc.c:858:177: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-map: %" PRIuPTR " value%s updated, %" PRIuPTR " variant ID%s not present.\n", hit_ct, (hit_ct == 1)? "" : "s", miss_ct, (miss_ct == 1)? "" : "s");
^
plink_misc.c:858:177: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_misc.c:860:103: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-map: %" PRIuPTR " value%s updated.\n", hit_ct, (hit_ct == 1)? "" : "s");
^
plink_misc.c:895:114: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --update-map file has fewer tokens than expected.\n", line_idx);
^
plink_misc.c: In function 'int32_t update_marker_names(Two_col_params*, uint32_t*, uint32_t, char*, long unsigned int, long unsigned int)':
plink_misc.c:992:178: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-name: %" PRIuPTR " value%s updated, %" PRIuPTR " variant ID%s not present.\n", hit_ct, (hit_ct == 1)? "" : "s", miss_ct, (miss_ct == 1)? "" : "s");
^
plink_misc.c:992:178: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_misc.c:994:104: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-name: %" PRIuPTR " value%s updated.\n", hit_ct, (hit_ct == 1)? "" : "s");
^
plink_misc.c: In function 'int32_t update_marker_alleles(char*, uint32_t*, uint32_t, char*, long unsigned int, long unsigned int, long unsigned int*, char**, long unsigned int*, char*, char*)':
plink_misc.c:1063:107: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --update-alleles file is pathologically long.\n", line_idx);
^
In file included from plink_misc.c:1:0:
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_misc.c:1120:9: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Comma-containing new allele code on line %" PRIuPTR " of --update-alleles file.\n", line_idx);
^
plink_misc.c:1156:175: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-alleles: %" PRIuPTR " variant%s updated, %" PRIuPTR " ID%s not present.\n", hit_ct, (hit_ct == 1)? "" : "s", miss_ct, (miss_ct == 1)? "" : "s");
^
plink_misc.c:1156:175: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_misc.c:1158:109: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-alleles: %" PRIuPTR " variant%s updated.\n", hit_ct, (hit_ct == 1)? "" : "s");
^
In file included from plink_misc.c:1:0:
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_misc.c:1162:5: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("%" PRIuPTR " update failure%s logged to %s .\n", err_ct, (err_ct == 1)? "" : "s", outname);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_misc.c:1179:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Duplicate allele code on line %" PRIuPTR " of --update-alleles file.\n", line_idx);
^
plink_misc.c: In function 'int32_t flip_strand(char*, uint32_t*, uint32_t, char*, long unsigned int, long unsigned int, long unsigned int*, char**)':
plink_misc.c:1312:165: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--flip: %" PRIuPTR " SNP%s flipped, %" PRIuPTR " SNP ID%s not present.\n", hit_ct, (hit_ct == 1)? "" : "s", miss_ct, (miss_ct == 1)? "" : "s");
^
plink_misc.c:1312:165: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_misc.c:1314:95: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--flip: %" PRIuPTR " SNP%s flipped.\n", hit_ct, (hit_ct == 1)? "" : "s");
^
plink_misc.c: In function 'int32_t update_sample_ids(char*, char*, long unsigned int, long unsigned int, uint32_t*, char*)':
plink_misc.c:1371:108: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --update-ids file is pathologically long.\n", line_idx);
^
plink_misc.c:1397:104: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid IID '0' on line %" PRIuPTR " of --update-ids file.\n", line_idx);
^
plink_misc.c:1407:160: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-ids: %" PRIuPTR " %s updated, %" PRIuPTR " ID%s not present.\n", hit_ct, species_str(hit_ct), miss_ct, (miss_ct == 1)? "" : "s");
^
plink_misc.c:1407:160: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_misc.c:1409:94: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-ids: %" PRIuPTR " %s updated.\n", hit_ct, species_str(hit_ct));
^
plink_misc.c: In function 'int32_t update_sample_parents(char*, char*, long unsigned int, long unsigned int, uint32_t*, char*, long unsigned int, char*, long unsigned int, long unsigned int*)':
plink_misc.c:1508:164: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-parents: %" PRIuPTR " %s updated, %" PRIuPTR " ID%s not present.\n", hit_ct, species_str(hit_ct), miss_ct, (miss_ct == 1)? "" : "s");
^
plink_misc.c:1508:164: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_misc.c:1510:98: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-parents: %" PRIuPTR " %s updated.\n", hit_ct, species_str(hit_ct));
^
plink_misc.c: In function 'int32_t update_sample_sexes(char*, uint32_t, char*, long unsigned int, long unsigned int, uint32_t*, long unsigned int*, long unsigned int*)':
plink_misc.c:1572:103: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --update-sex file is pathologically long.\n", line_idx);
^
plink_misc.c:1603:167: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid sex value on line %" PRIuPTR " of --update-sex file.\n(Acceptable values: 1/M = male, 2/F = female, 0 = missing.)\n", line_idx);
^
plink_misc.c:1623:160: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-sex: %" PRIuPTR " %s updated, %" PRIuPTR " ID%s not present.\n", hit_ct, species_str(hit_ct), miss_ct, (miss_ct == 1)? "" : "s");
^
plink_misc.c:1623:160: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
plink_misc.c:1625:94: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "--update-sex: %" PRIuPTR " %s updated.\n", hit_ct, species_str(hit_ct));
^
plink_misc.c:1640:114: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --update-sex file has fewer tokens than expected.\n", line_idx);
^
plink_misc.c: In function 'int32_t read_external_freqs(char*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, Chrom_info*, char**, double*, uint32_t*, uint32_t)':
plink_misc.c:2056:106: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid het count on line %" PRIuPTR " of --read-freq file.\n", line_idx);
^
plink_misc.c:2063:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid hap. A1 count on line %" PRIuPTR " of --read-freq file.\n", line_idx);
^
plink_misc.c:2067:110: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid hap. A2 count on line %" PRIuPTR " of --read-freq file.\n", line_idx);
^
plink_misc.c:2133:108: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --read-freq has more tokens than expected.\n", line_idx);
^
In file included from plink_misc.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_misc.c:2147:7: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of --read-freq file is pathologically long.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_misc.c:2158:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Invalid hom. A1 count on line %" PRIuPTR " of --read-freq file.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_misc.c:2162:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Invalid hom. A2 count on line %" PRIuPTR " of --read-freq file.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_misc.c:2166:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Invalid NCHROBS value on line %" PRIuPTR " of --read-freq file.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_misc.c:2170:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Invalid MAF on line %" PRIuPTR " of --read-freq file.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_misc.c:2174:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: A1 and A2 alleles match on line %" PRIuPTR " of --read-freq file.\n", line_idx);
^
plink_misc.c:2178:108: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid chromosome code on line %" PRIuPTR" of --read-freq file.\n", line_idx);
^
In file included from plink_misc.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_misc.c:2185:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of --read-freq file has fewer tokens than expected.\n", line_idx);
^
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_misc.c:2192:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Allele(s) on line %" PRIuPTR " of --read-freq file don't match loaded\nvalues.\n", line_idx);
^
plink_misc.c: In function 'int32_t load_ax_alleles(Two_col_params*, long unsigned int, long unsigned int*, long unsigned int, char**, long unsigned int*, long unsigned int*, char*, long unsigned int, double*, uint32_t)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_misc.c:2256:2: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, axalleles->fname);
^
plink_misc.c: In function 'int32_t sexcheck(FILE*, long unsigned int, char*, char*, long unsigned int, long unsigned int*, long unsigned int, long unsigned int*, long unsigned int, char*, uint32_t, uint32_t, long unsigned int, long unsigned int*, long unsigned int*, uint64_t, double, double, uint32_t, uint32_t, Chrom_info*, double*, uint32_t*)':
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_misc.c:3233:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("--impute-sex: %" PRIuPTR " Xchr and %" PRIuPTR " Ychr variant(s) scanned, all sexes imputed. Report written to %s .\n", x_variant_ct, ytotal, outname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_misc.c:3233:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("--impute-sex: %" PRIuPTR " Xchr and %" PRIuPTR " Ychr variant(s) scanned, all sexes imputed. Report written to %s .\n", x_variant_ct, ytotal, outname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_misc.c:3235:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("--impute-sex: %" PRIuPTR " Xchr and %" PRIuPTR " Ychr variant(s) scanned, %" PRIuPTR "/%" PRIuPTR " sex%s imputed. Report written to %s .\n", x_variant_ct, ytotal, (sample_ct - gender_unk_ct), sample_ct, (sample_ct == 1)? "" : "es", outname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_misc.c:3235:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("--impute-sex: %" PRIuPTR " Xchr and %" PRIuPTR " Ychr variant(s) scanned, %" PRIuPTR "/%" PRIuPTR " sex%s imputed. Report written to %s .\n", x_variant_ct, ytotal, (sample_ct - gender_unk_ct), sample_ct, (sample_ct == 1)? "" : "es", outname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_misc.c:3235:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("--impute-sex: %" PRIuPTR " Xchr and %" PRIuPTR " Ychr variant(s) scanned, %" PRIuPTR "/%" PRIuPTR " sex%s imputed. Report written to %s .\n", x_variant_ct, ytotal, (sample_ct - gender_unk_ct), sample_ct, (sample_ct == 1)? "" : "es", outname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 6 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_misc.c:3235:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("--impute-sex: %" PRIuPTR " Xchr and %" PRIuPTR " Ychr variant(s) scanned, %" PRIuPTR "/%" PRIuPTR " sex%s imputed. Report written to %s .\n", x_variant_ct, ytotal, (sample_ct - gender_unk_ct), sample_ct, (sample_ct == 1)? "" : "es", outname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_misc.c:3240:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("--check-sex: %" PRIuPTR " Xchr and %" PRIuPTR " Ychr variant(s) scanned, no problems detected. Report written to %s .\n", x_variant_ct, ytotal, outname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_misc.c:3240:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("--check-sex: %" PRIuPTR " Xchr and %" PRIuPTR " Ychr variant(s) scanned, no problems detected. Report written to %s .\n", x_variant_ct, ytotal, outname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_misc.c:3242:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("--check-sex: %" PRIuPTR " Xchr and %" PRIuPTR " Ychr variant(s) scanned, %u problem%s detected. Report written to %s .\n", x_variant_ct, ytotal, problem_ct, (problem_ct == 1)? "" : "s", outname);
^
plink_common.h:921:58: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPREPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0);
^
plink_misc.c:3242:7: note: in expansion of macro 'LOGPREPRINTFWW'
LOGPREPRINTFWW("--check-sex: %" PRIuPTR " Xchr and %" PRIuPTR " Ychr variant(s) scanned, %u problem%s detected. Report written to %s .\n", x_variant_ct, ytotal, problem_ct, (problem_ct == 1)? "" : "s", outname);
^
plink_misc.c: In function 'int32_t het_report(FILE*, long unsigned int, char*, char*, uint32_t, long unsigned int, long unsigned int*, long unsigned int, long unsigned int, long unsigned int*, long unsigned int, char*, uint32_t, uint32_t, long unsigned int, long unsigned int*, Chrom_info*, double*)':
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_misc.c:3874:3: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("--het%s: %" PRIuPTR " variant%s scanned, report written to %s .\n", loadbuf_f? " small-sample" : "", marker_ct, (marker_ct == 1)? "" : "s", outname);
^
plink_misc.c: In function 'int32_t fst_report(FILE*, long unsigned int, char*, char*, long unsigned int, long unsigned int*, long unsigned int, char*, long unsigned int, uint32_t*, Chrom_info*, long unsigned int, long unsigned int*, long unsigned int*, long unsigned int*, long unsigned int, uint32_t*, uint32_t*)':
plink_common.h:928:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW5(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(5); logprintb();
^
plink_misc.c:4024:3: note: in expansion of macro 'LOGPRINTFWW5'
LOGPRINTFWW5("Writing --fst report (%" PRIuPTR " populations) to %s ... ", cluster_ct, outname);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_misc.c:4144:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " marker%s (%u excluded).\n", marker_ct, (marker_ct == 1)? " with a valid Fst estimate" : "s with valid Fst estimates", skipped_marker_ct);
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_misc.c:4146:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("%" PRIuPTR " marker%s.\n", marker_ct, (marker_ct == 1)? " with a valid Fst estimate" : "s with valid Fst estimates");
^
plink_misc.c: In function 'int32_t score_report(Score_info*, FILE*, long unsigned int, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, char*, long unsigned int, char**, double*, long unsigned int, long unsigned int, long unsigned int*, char*, uint32_t, uint32_t, long unsigned int, long unsigned int*, long unsigned int*, long unsigned int*, double*, char*, uint32_t, Chrom_info*, char*, char*)':
plink_misc.c:4414:105: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --score file is pathologically long.\n", line_idx);
^
In file included from plink_misc.c:1:0:
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_misc.c:4436:5: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Warning: %" PRIuPTR " line%s skipped in --score file (%u due to variant ID mismatch, %u due to allele code mismatch); see %s for details.\n", miss_ct, (miss_ct == 1)? "" : "s", miss_varid_ct, miss_allele_ct, outname);
^
plink_misc.c:4507:113: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --q-score-range data file is pathologically long.\n", line_idx);
^
In file included from plink_misc.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_misc.c:4538:7: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Warning: %" PRIuPTR " line%s skipped in --q-score-range data file.\n", miss_ct, (miss_ct == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_misc.c:4585:2: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--score: %" PRIuPTR " range%s processed", range_ct, (range_ct == 1)? "" : "s");
^
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_misc.c:4587:4: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF(" (%" PRIuPTR " empty range%s skipped)", range_skip, (range_skip == 1)? "" : "s");
^
plink_misc.c:4595:112: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --q-score-range range file is pathologically long.\n", line_idx);
^
plink_misc.c:4609:121: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Excessively long range name on line %" PRIuPTR " of --q-score-range range\nfile.\n", line_idx);
^
In file included from plink_misc.c:1:0:
plink_common.h:913:56: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logerrprintb();
^
plink_misc.c:4869:5: note: in expansion of macro 'LOGERRPRINTF'
LOGERRPRINTF("Error: Line %" PRIuPTR " of --q-score-range data file has fewer tokens than\nexpected.\n", line_idx);
^
plink_misc.c:4873:109: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --score file has fewer tokens than expected.\n", line_idx);
^
plink_misc.c: In function 'int32_t meta_analysis_open_and_read_header(const char*, char*, long unsigned int, char*, uint32_t*, long unsigned int, long unsigned int, uint32_t, uint32_t*, gzFile_s**, uint32_t*, uint32_t*, long unsigned int*, uint32_t*)':
plink_misc.c:4922:95: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, fname);
^
plink_misc.c:5003:98: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s has too many columns.\n", line_idx, fname);
^
plink_misc.c: In function 'int32_t meta_analysis(char*, char*, char*, char*, char*, char*, uint32_t, char*, char*, char*, double, Chrom_info*)':
plink_misc.c:5511:103: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, fname_ptr);
^
plink_misc.c:5546:113: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s has an excessively long variant ID.\n", line_idx, fname_ptr);
^
In file included from plink_misc.c:1:0:
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_misc.c:6310:5: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("--meta-analysis: %" PRIuPTR " variant%s processed; results written to %s .\n", final_variant_ct, (final_variant_ct == 1)? "" : "s", outname);
^
plink_rserve.c: In function 'int32_t rserve_call(char*, uint32_t, uint32_t, FILE*, long unsigned int, long unsigned int, long unsigned int, long unsigned int*, long unsigned int*, char*, long unsigned int, char**, uint32_t*, uint32_t, Chrom_info*, long unsigned int, long unsigned int*, uint32_t, long unsigned int*, double*, uint32_t, uint32_t*, uint32_t*, long unsigned int, double*, char*, char*)':
plink_rserve.c:89:99: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of --R file is pathologically long.\n", line_idx);
^
plink_set.c: In function 'int32_t load_range_list(FILE*, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, long unsigned int, char*, long unsigned int, uint32_t*, Chrom_info*, long unsigned int*, char**, long unsigned int*, Make_set_range***, uint64_t**, const char*)':
plink_set.c:284:109: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s file is pathologically long.\n", line_idx, file_descrip);
^
plink_set.c:299:117: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s file has fewer tokens than expected.\n", line_idx, file_descrip);
^
plink_set.c:306:113: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid chromosome code on line %" PRIuPTR " of %s file.\n", line_idx, file_descrip);
^
plink_set.c:413:107: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s file is pathologically long.\n", line_idx, file_descrip);
^
plink_set.c:428:115: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s file has fewer tokens than expected.\n", line_idx, file_descrip);
^
plink_set.c:435:111: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid chromosome code on line %" PRIuPTR " of %s file.\n", line_idx, file_descrip);
^
plink_set.c:455:116: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid range start position on line %" PRIuPTR " of %s file.\n", line_idx, file_descrip);
^
plink_set.c:460:114: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Invalid range end position on line %" PRIuPTR " of %s file.\n", line_idx, file_descrip);
^
plink_set.c:464:131: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Range end position smaller than range start on line %" PRIuPTR " of %s file.\n", line_idx, file_descrip);
^
In file included from plink_set.c:1:0:
plink_set.c: In function 'int32_t extract_exclude_range(char*, uint32_t*, long unsigned int, long unsigned int*, long unsigned int*, uint32_t, uint32_t, Chrom_info*)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_set.c:600:5: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--%s range: %" PRIuPTR " variant%s excluded.\n", is_exclude? "exclude" : "extract", orig_marker_exclude_ct, (orig_marker_exclude_ct == 1)? "" : "s");
^
plink_set.c: In function 'int32_t define_sets(Set_info*, long unsigned int, long unsigned int*, uint32_t*, long unsigned int*, char*, long unsigned int, Chrom_info*, uint32_t)':
plink_common.h:911:53: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTF(...) sprintf(g_logbuf, __VA_ARGS__); logprintb();
^
plink_set.c:1590:3: note: in expansion of macro 'LOGPRINTF'
LOGPRINTF("--%sset: %" PRIuPTR " set%s defined.\n", make_set? "make-" : "", set_ct, (set_ct == 1)? "" : "s");
^
plink_set.c: In function 'int32_t annotate(Annot_info*, char*, char*, double, Chrom_info*)':
plink_set.c:2482:109: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, aip->attrib_fname);
^
In file included from plink_set.c:1:0:
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_set.c:2602:7: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("--annotate attrib: %" PRIuPTR " variant ID%s and %" PRIuPTR " unique attribute%s loaded from %s.\n", snplist_attr_ct, (snplist_attr_ct == 1)? "" : "s", attr_id_ct, (attr_id_ct == 1)? "" : "s", aip->attrib_fname);
^
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 5 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_set.c:2602:7: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("--annotate attrib: %" PRIuPTR " variant ID%s and %" PRIuPTR " unique attribute%s loaded from %s.\n", snplist_attr_ct, (snplist_attr_ct == 1)? "" : "s", attr_id_ct, (attr_id_ct == 1)? "" : "s", aip->attrib_fname);
^
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_set.c:2652:9: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("--annotate ranges: %" PRIuPTR " annotations loaded from %s (counting multi-chromosome annotations once per spanned chromosome).\n", range_ct, aip->ranges_fname);
^
plink_set.c:2856:107: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
sprintf(g_logbuf, "Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, aip->fname);
^
In file included from plink_set.c:1:0:
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_set.c:3103:5: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("--annotate: %" PRIuPTR " out of %" PRIuPTR " row%s annotated; new report written to %s .\n", annot_row_ct, total_row_ct, (total_row_ct == 1)? "" : "s", outname);
^
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 4 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_set.c:3103:5: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("--annotate: %" PRIuPTR " out of %" PRIuPTR " row%s annotated; new report written to %s .\n", annot_row_ct, total_row_ct, (total_row_ct == 1)? "" : "s", outname);
^
plink_common.h:923:55: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logprintb();
^
plink_set.c:3105:5: note: in expansion of macro 'LOGPRINTFWW'
LOGPRINTFWW("--annotate: %" PRIuPTR " row%s annotated; new report written to %s .\n", total_row_ct, (total_row_ct == 1)? "" : "s", outname);
^
plink_set.c: In function 'int32_t gene_report(char*, char*, char*, uint32_t, char*, const char*, char*, char*, double, Chrom_info*)':
plink_common.h:925:58: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
#define LOGERRPRINTFWW(...) sprintf(g_logbuf, __VA_ARGS__); wordwrapb(0); logerrprintb();
^
plink_set.c:3569:7: note: in expansion of macro 'LOGERRPRINTFWW'
LOGERRPRINTFWW("Error: Line %" PRIuPTR " of %s is pathologically long.\n", line_idx, fname);
^
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
# Rename binary from plink to plink1.9 to avoid name conflict
mv plink plink1.9
help2man --no-discard-stderr --name="whole genome SNP analysis" ./plink1.9 > plink1.9.1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_test -a
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
dh_auto_install -a
debian/rules override_dh_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
mkdir -p /<<PKGBUILDDIR>>/debian/plink1.9/usr/lib/debian-med/bin/ && \
mv plink1.9 /<<PKGBUILDDIR>>/debian/plink1.9/usr/lib/debian-med/bin/
dh_install
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_installdocs -a
dh_installchangelogs -a
dh_installexamples -a
debian/rules override_dh_installman
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_installman plink1.9.1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_perl -a
debian/rules override_dh_link
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_link usr/lib/debian-med/bin/plink1.9 usr/bin/plink1.9
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/plink1.9/usr/lib/debian-med/bin/plink1.9 contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/plink1.9/usr/lib/debian-med/bin/plink1.9 was not linked against libatlas.so.3 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/plink1.9/usr/lib/debian-med/bin/plink1.9 was not linked against libdl.so.2 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/plink1.9/usr/lib/debian-med/bin/plink1.9 was not linked against ld-linux-armhf.so.3 (it uses none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'plink1.9-dbgsym' in '../plink1.9-dbgsym_1.90~b3.36-160416-1_armhf.deb'.
dpkg-deb: building package 'plink1.9' in '../plink1.9_1.90~b3.36-160416-1_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../plink1.9_1.90~b3.36-160416-1_armhf.changes
dpkg-genchanges: warning: package plink1.9-dbgsym listed in files list but not in control info
dpkg-genchanges: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build plink1.9-1.90~b3.36-160416
dpkg-buildpackage: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 20160508-0606
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
plink1.9_1.90~b3.36-160416-1_armhf.changes:
-------------------------------------------
Format: 1.8
Date: Tue, 26 Apr 2016 22:28:27 +0200
Source: plink1.9
Binary: plink1.9
Architecture: armhf
Version: 1.90~b3.36-160416-1
Distribution: stretch-staging
Urgency: low
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Dylan Aïssi <bob.dybian@gmail.com>
Description:
plink1.9 - whole-genome association analysis toolset
Changes:
plink1.9 (1.90~b3.36-160416-1) unstable; urgency=low
.
* New upstream release
* Standards-Version: 3.9.8 (no changes needed)
Checksums-Sha1:
c2ce31a84c1997deee83d90117c9d27b2ebda576 2013672 plink1.9-dbgsym_1.90~b3.36-160416-1_armhf.deb
1896c019bf65e49c7db7434fc3a080769ac60978 703750 plink1.9_1.90~b3.36-160416-1_armhf.deb
Checksums-Sha256:
183b2710fedde94466aa5f78573253cd63ce7bd0b5244e411c30fafb075597bc 2013672 plink1.9-dbgsym_1.90~b3.36-160416-1_armhf.deb
87ec63bce045054b80f82a07bee176693fa57882f2778d1ad91f501cf0c9bb42 703750 plink1.9_1.90~b3.36-160416-1_armhf.deb
Files:
e0706ce8d4a49341867db5121862824d 2013672 debug extra plink1.9-dbgsym_1.90~b3.36-160416-1_armhf.deb
57a6eacf93f06d5190bcc82470e8f701 703750 science optional plink1.9_1.90~b3.36-160416-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
plink1.9-dbgsym_1.90~b3.36-160416-1_armhf.deb
---------------------------------------------
new debian package, version 2.0.
size 2013672 bytes: control archive=504 bytes.
443 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: plink1.9-dbgsym
Source: plink1.9
Version: 1.90~b3.36-160416-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2100
Depends: plink1.9 (= 1.90~b3.36-160416-1)
Section: debug
Priority: extra
Homepage: https://www.cog-genomics.org/plink2/
Description: Debug symbols for plink1.9
Auto-Built-Package: debug-symbols
Build-Ids: c17bbd53ecabe43cd0da0b697258b048794f380a
drwxr-xr-x root/root 0 2016-05-08 06:06 ./
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/lib/
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/lib/debug/.build-id/c1/
-rw-r--r-- root/root 2139612 2016-05-08 06:06 ./usr/lib/debug/.build-id/c1/7bbd53ecabe43cd0da0b697258b048794f380a.debug
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/share/
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/share/doc/
lrwxrwxrwx root/root 0 2016-05-08 06:06 ./usr/share/doc/plink1.9-dbgsym -> plink1.9
plink1.9_1.90~b3.36-160416-1_armhf.deb
--------------------------------------
new debian package, version 2.0.
size 703750 bytes: control archive=1218 bytes.
1232 bytes, 25 lines control
741 bytes, 10 lines md5sums
Package: plink1.9
Version: 1.90~b3.36-160416-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1752
Depends: libatlas3-base, libc6 (>= 2.4), libgcc1 (>= 1:3.5), liblapack3 | liblapack.so.3, libstdc++6 (>= 4.3.0), zlib1g (>= 1:1.2.6)
Section: science
Priority: optional
Homepage: https://www.cog-genomics.org/plink2/
Description: whole-genome association analysis toolset
plink expects as input the data from SNP (single nucleotide polymorphism)
chips of many individuals and their phenotypical description of a disease.
It finds associations of single or pairs of DNA variations with a phenotype
and can retrieve SNP annotation from an online source.
.
SNPs can evaluated individually or as pairs for their association with the
disease phenotypes. The joint investigation of copy number variations is
supported. A variety of statistical tests have been implemented.
.
plink1.9 is a comprehensive update of plink with new algorithms and new
methods, faster and less memory consumer than the first plink.
.
Please note: The executable was renamed to plink1.9
because of a name clash. Please read more about this
in /usr/share/doc/README.Debian.
drwxr-xr-x root/root 0 2016-05-08 06:06 ./
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/bin/
lrwxrwxrwx root/root 0 2016-05-08 06:06 ./usr/bin/plink1.9 -> ../lib/debian-med/bin/plink1.9
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/lib/
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/lib/debian-med/
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/lib/debian-med/bin/
-rwxr-xr-x root/root 1731692 2016-05-08 06:06 ./usr/lib/debian-med/bin/plink1.9
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/share/
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/share/doc/
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/share/doc/plink1.9/
-rw-r--r-- root/root 1964 2016-04-27 00:09 ./usr/share/doc/plink1.9/README.Debian
-rw-r--r-- root/root 1750 2016-04-27 00:40 ./usr/share/doc/plink1.9/changelog.Debian.gz
-rw-r--r-- root/root 8697 2016-04-27 00:09 ./usr/share/doc/plink1.9/copyright
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/share/doc/plink1.9/examples/
-rw-r--r-- root/root 325 2016-04-27 00:09 ./usr/share/doc/plink1.9/examples/README
-rw-r--r-- root/root 267 2016-04-27 00:09 ./usr/share/doc/plink1.9/examples/expected.plink.assoc
-rw-r--r-- root/root 126 2016-04-27 00:09 ./usr/share/doc/plink1.9/examples/expected.plink.frq
-rw-r--r-- root/root 27 2014-02-11 18:07 ./usr/share/doc/plink1.9/examples/toy.map
-rw-r--r-- root/root 58 2013-01-28 05:19 ./usr/share/doc/plink1.9/examples/toy.ped
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/share/man/
drwxr-xr-x root/root 0 2016-05-08 06:06 ./usr/share/man/man1/
-rw-r--r-- root/root 27821 2016-05-08 06:06 ./usr/share/man/man1/plink1.9.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 12424
Build-Time: 841
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 265
Job: plink1.9_1.90~b3.36-160416-1
Machine Architecture: armhf
Package: plink1.9
Package-Time: 1149
Source-Version: 1.90~b3.36-160416-1
Space: 12424
Status: successful
Version: 1.90~b3.36-160416-1
--------------------------------------------------------------------------------
Finished at 20160508-0606
Build needed 00:19:09, 12424k disc space