WARNING: (guile-user): imported module (guix build utils) overrides core binding `delete' starting phase `separate-from-pid1' build process now running as PID 18 phase `separate-from-pid1' succeeded after 0.0 seconds starting phase `set-SOURCE-DATE-EPOCH' phase `set-SOURCE-DATE-EPOCH' succeeded after 0.0 seconds starting phase `set-paths' environment variable `PATH' set to `/gnu/store/15wm6qzgpri4a73242jls1rsh7gvn3hb-meson-1.5.2/bin:/gnu/store/nj5b540982y2x53g0zb6nqdddshpmx3n-ninja-1.11.1/bin:/gnu/store/g1byb5ca9ypnynqg9sxqif5spnyj0qc1-bash-tap-1.0.2/bin:/gnu/store/a16l47mf9cgbrkcgqc6blm261rzvyi0v-bc-1.07.1/bin:/gnu/store/4ymixa029pvgwzsli1zbsrx1w1crxjwl-grep-3.11/bin:/gnu/store/n4nli30y6alhkxv8i6ad4pgy50lng1pg-parallel-20250122/bin:/gnu/store/vxb9lrvvxaqrx2lf3zsy4j4pl4yciqv5-perl-5.36.0/bin:/gnu/store/hahvgqpl61kg7jnljx217wfv54xj4fbg-pkg-config-0.29.2/bin:/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/bin:/gnu/store/afkn69mrnkizsyyfi5cigjpbscdhwkqs-samtools-1.19/bin:/gnu/store/2aibjrvig80wzggw004yf4kja52dyx0i-fastahack-1.0.0/bin:/gnu/store/w7kalacx2s6663vajhhajwbrnxh01jaf-htslib-1.19/bin:/gnu/store/cyjfscrgwii929pz4ibgqlzccbgspxzx-smithwaterman-0.0.0-2.2610e25/bin:/gnu/store/pnmivxsrqc4hryjdymkvbd2cqsv92gk9-tabixpp-1.1.2/bin:/gnu/store/c4fyfh5sgscl6zki12k369jvqi49yz75-vcflib-1.0.9/bin:/gnu/store/xf9q2qibn5vb6cy6jb3ifkrh4wql7vxy-tar-1.34/bin:/gnu/store/5g3pia8fi48qvaqhb0xqw1j5yrxfkpbm-gzip-1.13/bin:/gnu/store/7g02j4v5hqpp6pdli5wsxls4pv5r1z25-bzip2-1.0.8/bin:/gnu/store/dmyjj7h2s2a2w5mcq6vacn3g7bxlcqfv-file-5.45/bin:/gnu/store/l1vf4qc0b70pzxqgz72sm4rj7b5fa1w0-diffutils-3.10/bin:/gnu/store/ihhhssc16ii48rds45i7v356l7p721ri-patch-2.7.6/bin:/gnu/store/w7isjvmf0qcs290vjwb7p3rjyfx0dn4s-findutils-4.9.0/bin:/gnu/store/77jdcly3xkn8banp17vpfqm8f5vak8wc-gawk-5.3.0/bin:/gnu/store/y8khv5c0z35xd5wh3lga1npkrg4n53wm-zstd-1.5.2/bin:/gnu/store/8mapjfzb13assv6nd4kph3csvqydk6ym-sed-4.8/bin:/gnu/store/ysla2nchzpzpr9gwhwv2ihm26hriiqxg-grep-3.11/bin:/gnu/store/ycv1hhqj8ny80xbdprcjyzhmyss1g2p3-xz-5.4.5/bin:/gnu/store/62c9pawfdpv1qrgavs8amadbwz8zfiaf-coreutils-9.1/bin:/gnu/store/lx366j1ydprzjyx6gyhjg3095m0swwqg-make-4.4.1/bin:/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin:/gnu/store/cfzwm4yq78c39iqxlr146jr2lk1rl09c-ld-wrapper-0/bin:/gnu/store/pqai4n95zn5wdw430gslb00sb967jdg8-binutils-2.41/bin:/gnu/store/zcvhj876402zaz3cd2j6s2k4y4fnzdf7-gcc-11.4.0/bin:/gnu/store/3gvs8sw95ldfypr1n688svl5brwdmdi9-glibc-2.39/bin:/gnu/store/3gvs8sw95ldfypr1n688svl5brwdmdi9-glibc-2.39/sbin' environment variable `PERL5LIB' set to `/gnu/store/vxb9lrvvxaqrx2lf3zsy4j4pl4yciqv5-perl-5.36.0/lib/perl5/site_perl' environment variable `PKG_CONFIG_PATH' set to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/lib/pkgconfig:/gnu/store/xv7mpp4gihrcklmgc94dn8zpb2bip9l8-simde-0.8.2/lib/pkgconfig:/gnu/store/2aibjrvig80wzggw004yf4kja52dyx0i-fastahack-1.0.0/lib/pkgconfig:/gnu/store/w7kalacx2s6663vajhhajwbrnxh01jaf-htslib-1.19/lib/pkgconfig:/gnu/store/cyjfscrgwii929pz4ibgqlzccbgspxzx-smithwaterman-0.0.0-2.2610e25/lib/pkgconfig:/gnu/store/pnmivxsrqc4hryjdymkvbd2cqsv92gk9-tabixpp-1.1.2/lib/pkgconfig:/gnu/store/c4fyfh5sgscl6zki12k369jvqi49yz75-vcflib-1.0.9/lib/pkgconfig:/gnu/store/dmyjj7h2s2a2w5mcq6vacn3g7bxlcqfv-file-5.45/lib/pkgconfig:/gnu/store/ycv1hhqj8ny80xbdprcjyzhmyss1g2p3-xz-5.4.5/lib/pkgconfig:/gnu/store/jxs9x17dbjlj31j736vm0xm2jclsjvxw-zlib-1.3/lib/pkgconfig:/gnu/store/pwgz95nhq5ynx91icmh8rdryg5szajl0-wfa2-lib-2.3.3/lib/pkgconfig' environment variable `GUIX_PYTHONPATH' set to `/gnu/store/15wm6qzgpri4a73242jls1rsh7gvn3hb-meson-1.5.2/lib/python3.10/site-packages:/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/lib/python3.10/site-packages' environment variable `PYTHONTZPATH' unset environment variable `BASH_LOADABLES_PATH' unset environment variable `C_INCLUDE_PATH' set to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/include:/gnu/store/xv7mpp4gihrcklmgc94dn8zpb2bip9l8-simde-0.8.2/include:/gnu/store/2aibjrvig80wzggw004yf4kja52dyx0i-fastahack-1.0.0/include:/gnu/store/w7kalacx2s6663vajhhajwbrnxh01jaf-htslib-1.19/include:/gnu/store/cyjfscrgwii929pz4ibgqlzccbgspxzx-smithwaterman-0.0.0-2.2610e25/include:/gnu/store/pnmivxsrqc4hryjdymkvbd2cqsv92gk9-tabixpp-1.1.2/include:/gnu/store/c4fyfh5sgscl6zki12k369jvqi49yz75-vcflib-1.0.9/include:/gnu/store/7g02j4v5hqpp6pdli5wsxls4pv5r1z25-bzip2-1.0.8/include:/gnu/store/dmyjj7h2s2a2w5mcq6vacn3g7bxlcqfv-file-5.45/include:/gnu/store/77jdcly3xkn8banp17vpfqm8f5vak8wc-gawk-5.3.0/include:/gnu/store/ycv1hhqj8ny80xbdprcjyzhmyss1g2p3-xz-5.4.5/include:/gnu/store/lx366j1ydprzjyx6gyhjg3095m0swwqg-make-4.4.1/include:/gnu/store/pqai4n95zn5wdw430gslb00sb967jdg8-binutils-2.41/include:/gnu/store/zcvhj876402zaz3cd2j6s2k4y4fnzdf7-gcc-11.4.0/include:/gnu/store/3gvs8sw95ldfypr1n688svl5brwdmdi9-glibc-2.39/include:/gnu/store/jxs9x17dbjlj31j736vm0xm2jclsjvxw-zlib-1.3/include:/gnu/store/15a3kn3nr74rhhfdk122nlx93xcz8jny-htscodecs-1.6.0/include:/gnu/store/pwgz95nhq5ynx91icmh8rdryg5szajl0-wfa2-lib-2.3.3/include:/gnu/store/9xcpby78v4ydigv3s1rxc8ndyl2ni95m-linux-libre-headers-5.15.49/include' environment variable `CPLUS_INCLUDE_PATH' set to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/include:/gnu/store/xv7mpp4gihrcklmgc94dn8zpb2bip9l8-simde-0.8.2/include:/gnu/store/2aibjrvig80wzggw004yf4kja52dyx0i-fastahack-1.0.0/include:/gnu/store/w7kalacx2s6663vajhhajwbrnxh01jaf-htslib-1.19/include:/gnu/store/cyjfscrgwii929pz4ibgqlzccbgspxzx-smithwaterman-0.0.0-2.2610e25/include:/gnu/store/pnmivxsrqc4hryjdymkvbd2cqsv92gk9-tabixpp-1.1.2/include:/gnu/store/c4fyfh5sgscl6zki12k369jvqi49yz75-vcflib-1.0.9/include:/gnu/store/7g02j4v5hqpp6pdli5wsxls4pv5r1z25-bzip2-1.0.8/include:/gnu/store/dmyjj7h2s2a2w5mcq6vacn3g7bxlcqfv-file-5.45/include:/gnu/store/77jdcly3xkn8banp17vpfqm8f5vak8wc-gawk-5.3.0/include:/gnu/store/ycv1hhqj8ny80xbdprcjyzhmyss1g2p3-xz-5.4.5/include:/gnu/store/lx366j1ydprzjyx6gyhjg3095m0swwqg-make-4.4.1/include:/gnu/store/pqai4n95zn5wdw430gslb00sb967jdg8-binutils-2.41/include:/gnu/store/zcvhj876402zaz3cd2j6s2k4y4fnzdf7-gcc-11.4.0/include/c++:/gnu/store/zcvhj876402zaz3cd2j6s2k4y4fnzdf7-gcc-11.4.0/include:/gnu/store/3gvs8sw95ldfypr1n688svl5brwdmdi9-glibc-2.39/include:/gnu/store/jxs9x17dbjlj31j736vm0xm2jclsjvxw-zlib-1.3/include:/gnu/store/15a3kn3nr74rhhfdk122nlx93xcz8jny-htscodecs-1.6.0/include:/gnu/store/pwgz95nhq5ynx91icmh8rdryg5szajl0-wfa2-lib-2.3.3/include:/gnu/store/9xcpby78v4ydigv3s1rxc8ndyl2ni95m-linux-libre-headers-5.15.49/include' environment variable `OBJC_INCLUDE_PATH' set to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/include:/gnu/store/xv7mpp4gihrcklmgc94dn8zpb2bip9l8-simde-0.8.2/include:/gnu/store/2aibjrvig80wzggw004yf4kja52dyx0i-fastahack-1.0.0/include:/gnu/store/w7kalacx2s6663vajhhajwbrnxh01jaf-htslib-1.19/include:/gnu/store/cyjfscrgwii929pz4ibgqlzccbgspxzx-smithwaterman-0.0.0-2.2610e25/include:/gnu/store/pnmivxsrqc4hryjdymkvbd2cqsv92gk9-tabixpp-1.1.2/include:/gnu/store/c4fyfh5sgscl6zki12k369jvqi49yz75-vcflib-1.0.9/include:/gnu/store/7g02j4v5hqpp6pdli5wsxls4pv5r1z25-bzip2-1.0.8/include:/gnu/store/dmyjj7h2s2a2w5mcq6vacn3g7bxlcqfv-file-5.45/include:/gnu/store/77jdcly3xkn8banp17vpfqm8f5vak8wc-gawk-5.3.0/include:/gnu/store/ycv1hhqj8ny80xbdprcjyzhmyss1g2p3-xz-5.4.5/include:/gnu/store/lx366j1ydprzjyx6gyhjg3095m0swwqg-make-4.4.1/include:/gnu/store/pqai4n95zn5wdw430gslb00sb967jdg8-binutils-2.41/include:/gnu/store/zcvhj876402zaz3cd2j6s2k4y4fnzdf7-gcc-11.4.0/include:/gnu/store/3gvs8sw95ldfypr1n688svl5brwdmdi9-glibc-2.39/include:/gnu/store/jxs9x17dbjlj31j736vm0xm2jclsjvxw-zlib-1.3/include:/gnu/store/15a3kn3nr74rhhfdk122nlx93xcz8jny-htscodecs-1.6.0/include:/gnu/store/pwgz95nhq5ynx91icmh8rdryg5szajl0-wfa2-lib-2.3.3/include:/gnu/store/9xcpby78v4ydigv3s1rxc8ndyl2ni95m-linux-libre-headers-5.15.49/include' environment variable `OBJCPLUS_INCLUDE_PATH' set to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/include:/gnu/store/xv7mpp4gihrcklmgc94dn8zpb2bip9l8-simde-0.8.2/include:/gnu/store/2aibjrvig80wzggw004yf4kja52dyx0i-fastahack-1.0.0/include:/gnu/store/w7kalacx2s6663vajhhajwbrnxh01jaf-htslib-1.19/include:/gnu/store/cyjfscrgwii929pz4ibgqlzccbgspxzx-smithwaterman-0.0.0-2.2610e25/include:/gnu/store/pnmivxsrqc4hryjdymkvbd2cqsv92gk9-tabixpp-1.1.2/include:/gnu/store/c4fyfh5sgscl6zki12k369jvqi49yz75-vcflib-1.0.9/include:/gnu/store/7g02j4v5hqpp6pdli5wsxls4pv5r1z25-bzip2-1.0.8/include:/gnu/store/dmyjj7h2s2a2w5mcq6vacn3g7bxlcqfv-file-5.45/include:/gnu/store/77jdcly3xkn8banp17vpfqm8f5vak8wc-gawk-5.3.0/include:/gnu/store/ycv1hhqj8ny80xbdprcjyzhmyss1g2p3-xz-5.4.5/include:/gnu/store/lx366j1ydprzjyx6gyhjg3095m0swwqg-make-4.4.1/include:/gnu/store/pqai4n95zn5wdw430gslb00sb967jdg8-binutils-2.41/include:/gnu/store/zcvhj876402zaz3cd2j6s2k4y4fnzdf7-gcc-11.4.0/include/c++:/gnu/store/zcvhj876402zaz3cd2j6s2k4y4fnzdf7-gcc-11.4.0/include:/gnu/store/3gvs8sw95ldfypr1n688svl5brwdmdi9-glibc-2.39/include:/gnu/store/jxs9x17dbjlj31j736vm0xm2jclsjvxw-zlib-1.3/include:/gnu/store/15a3kn3nr74rhhfdk122nlx93xcz8jny-htscodecs-1.6.0/include:/gnu/store/pwgz95nhq5ynx91icmh8rdryg5szajl0-wfa2-lib-2.3.3/include:/gnu/store/9xcpby78v4ydigv3s1rxc8ndyl2ni95m-linux-libre-headers-5.15.49/include' environment variable `LIBRARY_PATH' set to `/gnu/store/15wm6qzgpri4a73242jls1rsh7gvn3hb-meson-1.5.2/lib:/gnu/store/vxb9lrvvxaqrx2lf3zsy4j4pl4yciqv5-perl-5.36.0/lib:/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/lib:/gnu/store/xv7mpp4gihrcklmgc94dn8zpb2bip9l8-simde-0.8.2/lib:/gnu/store/g3yr6jyx8biiwfl8yh8rj24c84kz4cy5-test-simple-bash-src-checkout/lib:/gnu/store/2aibjrvig80wzggw004yf4kja52dyx0i-fastahack-1.0.0/lib:/gnu/store/w7kalacx2s6663vajhhajwbrnxh01jaf-htslib-1.19/lib:/gnu/store/cyjfscrgwii929pz4ibgqlzccbgspxzx-smithwaterman-0.0.0-2.2610e25/lib:/gnu/store/pnmivxsrqc4hryjdymkvbd2cqsv92gk9-tabixpp-1.1.2/lib:/gnu/store/c4fyfh5sgscl6zki12k369jvqi49yz75-vcflib-1.0.9/lib:/gnu/store/7g02j4v5hqpp6pdli5wsxls4pv5r1z25-bzip2-1.0.8/lib:/gnu/store/dmyjj7h2s2a2w5mcq6vacn3g7bxlcqfv-file-5.45/lib:/gnu/store/77jdcly3xkn8banp17vpfqm8f5vak8wc-gawk-5.3.0/lib:/gnu/store/ycv1hhqj8ny80xbdprcjyzhmyss1g2p3-xz-5.4.5/lib:/gnu/store/pqai4n95zn5wdw430gslb00sb967jdg8-binutils-2.41/lib:/gnu/store/3gvs8sw95ldfypr1n688svl5brwdmdi9-glibc-2.39/lib:/gnu/store/s21dvcsxf4ynf9jsip352z568knxb5hp-glibc-2.39-static/lib:/gnu/store/jxs9x17dbjlj31j736vm0xm2jclsjvxw-zlib-1.3/lib:/gnu/store/15a3kn3nr74rhhfdk122nlx93xcz8jny-htscodecs-1.6.0/lib:/gnu/store/pwgz95nhq5ynx91icmh8rdryg5szajl0-wfa2-lib-2.3.3/lib' environment variable `GUIX_LOCPATH' set to `/gnu/store/3gvs8sw95ldfypr1n688svl5brwdmdi9-glibc-2.39/lib/locale' environment variable `TZDIR' unset phase `set-paths' succeeded after 0.0 seconds starting phase `install-locale' using 'C.UTF-8' locale for category "LC_ALL" phase `install-locale' succeeded after 0.0 seconds starting phase `unpack' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/meson_options.txt' -> `./meson_options.txt' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/TODO.md' -> `./TODO.md' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/.gitmodules' -> `./.gitmodules' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/README.md' -> `./README.md' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/guix.scm' -> `./guix.scm' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/.travis.yml' -> `./.travis.yml' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/meson.build' -> `./meson.build' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/.gitignore' -> `./.gitignore' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/RELEASE-NOTES.md' -> `./RELEASE-NOTES.md' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/LICENSE' -> `./LICENSE' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/CMakeLists-do-not-use.txt' -> `./CMakeLists-do-not-use.txt' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Bias.cpp' -> `./src/Bias.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Logging.h' -> `./src/Logging.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Contamination.h' -> `./src/Contamination.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/IndelAllele.cpp' -> `./src/IndelAllele.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Multinomial.h' -> `./src/Multinomial.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/BedReader.h' -> `./src/BedReader.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/LeftAlign.cpp' -> `./src/LeftAlign.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/DataLikelihood.cpp' -> `./src/DataLikelihood.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Allele.h' -> `./src/Allele.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/CNV.cpp' -> `./src/CNV.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Multinomial.cpp' -> `./src/Multinomial.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/NonCall.cpp' -> `./src/NonCall.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/IndelAllele.h' -> `./src/IndelAllele.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/SegfaultHandler.cpp' -> `./src/SegfaultHandler.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/bamleftalign.cpp' -> `./src/bamleftalign.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Parameters.h' -> `./src/Parameters.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/AlleleParser.cpp' -> `./src/AlleleParser.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Sample.cpp' -> `./src/Sample.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Product.h' -> `./src/Product.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/BedReader.cpp' -> `./src/BedReader.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Utility.h' -> `./src/Utility.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/TryCatch.h' -> `./src/TryCatch.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/version_git.h' -> `./src/version_git.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Dirichlet.h' -> `./src/Dirichlet.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/FBFasta.cpp' -> `./src/FBFasta.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Contamination.cpp' -> `./src/Contamination.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/DataLikelihood.h' -> `./src/DataLikelihood.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Sum.h' -> `./src/Sum.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/ResultData.cpp' -> `./src/ResultData.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Result.cpp' -> `./src/Result.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/.gitignore' -> `./src/.gitignore' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Ewens.cpp' -> `./src/Ewens.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/LargeFileSupport.h' -> `./src/LargeFileSupport.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Marginals.cpp' -> `./src/Marginals.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Bias.h' -> `./src/Bias.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Result.h' -> `./src/Result.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Genotype.cpp' -> `./src/Genotype.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Marginals.h' -> `./src/Marginals.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Dirichlet.cpp' -> `./src/Dirichlet.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/FBFasta.h' -> `./src/FBFasta.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Ewens.h' -> `./src/Ewens.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Genotype.h' -> `./src/Genotype.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/CNV.h' -> `./src/CNV.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/ResultData.h' -> `./src/ResultData.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/LeftAlign.h' -> `./src/LeftAlign.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Utility.cpp' -> `./src/Utility.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/freebayes.cpp' -> `./src/freebayes.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/AlleleParser.h' -> `./src/AlleleParser.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/NonCall.h' -> `./src/NonCall.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Parameters.cpp' -> `./src/Parameters.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Allele.cpp' -> `./src/Allele.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/SegfaultHandler.h' -> `./src/SegfaultHandler.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/src/Sample.h' -> `./src/Sample.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/python/hwe.py' -> `./python/hwe.py' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/python/factorialln.py' -> `./python/factorialln.py' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/python/logsumexp.py' -> `./python/logsumexp.py' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/python/.gitignore' -> `./python/.gitignore' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/python/phred.py' -> `./python/phred.py' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/python/allelebayes.py' -> `./python/allelebayes.py' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/python/README' -> `./python/README' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/python/multiset.py' -> `./python/multiset.py' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/python/dirichlet.py' -> `./python/dirichlet.py' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/runner.sh' -> `./test/runner.sh' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/q with spaces.fa.fai' -> `./test/tiny/q with spaces.fa.fai' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/q_spiked.vcf.gz.tbi' -> `./test/tiny/q_spiked.vcf.gz.tbi' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/hla.fa' -> `./test/tiny/hla.fa' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/hla.vcf.gz' -> `./test/tiny/hla.vcf.gz' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/q.regions' -> `./test/tiny/q.regions' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/hla.fa.fai' -> `./test/tiny/hla.fa.fai' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/1read.bam' -> `./test/tiny/1read.bam' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/NA12878.chr22.tiny.bam' -> `./test/tiny/NA12878.chr22.tiny.bam' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/NA12878.chr22.tiny.hla.bam.bai' -> `./test/tiny/NA12878.chr22.tiny.hla.bam.bai' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/NA12878.chr22.tiny.hla.bam' -> `./test/tiny/NA12878.chr22.tiny.hla.bam' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/q.fa.fai' -> `./test/tiny/q.fa.fai' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/hla.vcf.gz.tbi' -> `./test/tiny/hla.vcf.gz.tbi' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/NA12878.chr22.tiny.bam.bai' -> `./test/tiny/NA12878.chr22.tiny.bam.bai' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/q.vcf.gz.tbi' -> `./test/tiny/q.vcf.gz.tbi' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/q_spiked.vcf.gz' -> `./test/tiny/q_spiked.vcf.gz' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/q with spaces.regions' -> `./test/tiny/q with spaces.regions' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/NA12878.chr22.tiny.giab.vcf' -> `./test/tiny/NA12878.chr22.tiny.giab.vcf' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/NA12878.chr22.tiny.cram' -> `./test/tiny/NA12878.chr22.tiny.cram' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/q.fa' -> `./test/tiny/q.fa' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/1read.bam.bai' -> `./test/tiny/1read.bam.bai' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/q.vcf.gz' -> `./test/tiny/q.vcf.gz' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/tiny/q with spaces.fa' -> `./test/tiny/q with spaces.fa' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/splice/1:883884-887618.bam' -> `./test/splice/1:883884-887618.bam' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/splice/1:883884-887618.fa' -> `./test/splice/1:883884-887618.fa' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/splice/1:883884-887618.bam.bai' -> `./test/splice/1:883884-887618.bam.bai' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/splice/1:883884-887618.fa.fai' -> `./test/splice/1:883884-887618.fa.fai' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/regression/README.md' -> `./test/regression/README.md' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/regression/NA12878.chr22.tiny.vcf' -> `./test/regression/NA12878.chr22.tiny.vcf' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/t/03_reference_bases.t' -> `./test/t/03_reference_bases.t' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/t/01b_call_variants.t' -> `./test/t/01b_call_variants.t' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/t/02_multi_bam.t' -> `./test/t/02_multi_bam.t' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/t/00_region_and_target_handling.t' -> `./test/t/00_region_and_target_handling.t' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/t/01_call_variants.t' -> `./test/t/01_call_variants.t' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/performance/benchmark.md' -> `./test/performance/benchmark.md' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/data/test.vcf' -> `./test/data/test.vcf' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/data/test.ref' -> `./test/data/test.ref' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/data/test.bam' -> `./test/data/test.bam' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/data/test.bed' -> `./test/data/test.bed' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/data/test.bam.bai' -> `./test/data/test.bam.bai' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/data/test.ref.fai' -> `./test/data/test.ref.fai' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/data/test.alt' -> `./test/data/test.alt' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/test/data/targets.bed' -> `./test/data/targets.bed' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/scripts/coverage_to_regions.py' -> `./scripts/coverage_to_regions.py' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/scripts/freebayes-parallel' -> `./scripts/freebayes-parallel' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/scripts/update_version.sh' -> `./scripts/update_version.sh' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/scripts/vcffirstheader' -> `./scripts/vcffirstheader' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/scripts/split_ref_by_bai_datasize.py' -> `./scripts/split_ref_by_bai_datasize.py' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/scripts/fasta_generate_regions.py' -> `./scripts/fasta_generate_regions.py' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/scripts/bgziptabix' -> `./scripts/bgziptabix' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/scripts/GenerateFreebayesRegions.R' -> `./scripts/GenerateFreebayesRegions.R' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/scripts/samples.cnv' -> `./scripts/samples.cnv' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/scripts/sam_add_rg.pl' -> `./scripts/sam_add_rg.pl' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/scripts/generate_freebayes_region_scripts.sh' -> `./scripts/generate_freebayes_region_scripts.sh' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/.github/workflows/support-tracker-bot.yaml' -> `./.github/workflows/support-tracker-bot.yaml' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/.github/workflows/ci_test.yml' -> `./.github/workflows/ci_test.yml' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/.github/workflows/issue-tracker-bot.yaml' -> `./.github/workflows/issue-tracker-bot.yaml' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/.github/workflows/main.yml' -> `./.github/workflows/main.yml' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/.github/ISSUE_TEMPLATE/bug_report.md' -> `./.github/ISSUE_TEMPLATE/bug_report.md' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/README.md' -> `./contrib/README.md' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/README.md' -> `./contrib/SeqLib/README.md' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/LICENSE' -> `./contrib/SeqLib/LICENSE' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/src/BamWriter.cpp' -> `./contrib/SeqLib/src/BamWriter.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/src/BamReader.cpp' -> `./contrib/SeqLib/src/BamReader.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/src/BamRecord.cpp' -> `./contrib/SeqLib/src/BamRecord.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/src/ssw.c' -> `./contrib/SeqLib/src/ssw.c' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/src/BamHeader.cpp' -> `./contrib/SeqLib/src/BamHeader.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/src/GenomicRegion.cpp' -> `./contrib/SeqLib/src/GenomicRegion.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/src/ssw_cpp.cpp' -> `./contrib/SeqLib/src/ssw_cpp.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/json/json-forwards.h' -> `./contrib/SeqLib/json/json-forwards.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/json/json.h' -> `./contrib/SeqLib/json/json.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/ThreadPool.h' -> `./contrib/SeqLib/SeqLib/ThreadPool.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/ssw_cpp.h' -> `./contrib/SeqLib/SeqLib/ssw_cpp.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/BamRecord.h' -> `./contrib/SeqLib/SeqLib/BamRecord.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/ssw.h' -> `./contrib/SeqLib/SeqLib/ssw.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/BamWalker.h' -> `./contrib/SeqLib/SeqLib/BamWalker.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/aho_corasick.hpp' -> `./contrib/SeqLib/SeqLib/aho_corasick.hpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/GenomicRegionCollection.cpp' -> `./contrib/SeqLib/SeqLib/GenomicRegionCollection.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/IntervalTree.h' -> `./contrib/SeqLib/SeqLib/IntervalTree.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/UnalignedSequence.h' -> `./contrib/SeqLib/SeqLib/UnalignedSequence.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/SeqLibUtils.h' -> `./contrib/SeqLib/SeqLib/SeqLibUtils.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/BamHeader.h' -> `./contrib/SeqLib/SeqLib/BamHeader.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/BamWriter.h' -> `./contrib/SeqLib/SeqLib/BamWriter.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/SeqLibCommon.h' -> `./contrib/SeqLib/SeqLib/SeqLibCommon.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/GenomicRegion.h' -> `./contrib/SeqLib/SeqLib/GenomicRegion.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/GenomicRegionCollection.h' -> `./contrib/SeqLib/SeqLib/GenomicRegionCollection.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/ReadFilter.h' -> `./contrib/SeqLib/SeqLib/ReadFilter.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/SeqLib/BamReader.h' -> `./contrib/SeqLib/SeqLib/BamReader.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/bwa/bwa.h' -> `./contrib/SeqLib/bwa/bwa.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/bwa/bwamem.h' -> `./contrib/SeqLib/bwa/bwamem.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/bwa/bntseq.h' -> `./contrib/SeqLib/bwa/bntseq.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/bwa/utils.h' -> `./contrib/SeqLib/bwa/utils.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/bwa/kseq.h' -> `./contrib/SeqLib/bwa/kseq.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/SeqLib/bwa/bwt.h' -> `./contrib/SeqLib/bwa/bwt.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/freebayes/GenotypePriors.cpp' -> `./contrib/freebayes/GenotypePriors.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/freebayes/dummy.cpp' -> `./contrib/freebayes/dummy.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/freebayes/alleles.cpp' -> `./contrib/freebayes/alleles.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/freebayes/levenshtein.cpp' -> `./contrib/freebayes/levenshtein.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/freebayes/bamfiltertech.cpp' -> `./contrib/freebayes/bamfiltertech.cpp' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/freebayes/GenotypePriors.h' -> `./contrib/freebayes/GenotypePriors.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmathparser.h' -> `./contrib/ttmath/ttmathparser.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmath.h' -> `./contrib/ttmath/ttmath.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmathtypes.h' -> `./contrib/ttmath/ttmathtypes.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmathuint.h' -> `./contrib/ttmath/ttmathuint.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmathbig.h' -> `./contrib/ttmath/ttmathbig.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmathmisc.h' -> `./contrib/ttmath/ttmathmisc.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmathdec.h' -> `./contrib/ttmath/ttmathdec.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmathuint_x86_64.h' -> `./contrib/ttmath/ttmathuint_x86_64.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmathobjects.h' -> `./contrib/ttmath/ttmathobjects.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/COPYRIGHT' -> `./contrib/ttmath/COPYRIGHT' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmathuint_x86.h' -> `./contrib/ttmath/ttmathuint_x86.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmathuint_x86_64_msvc.asm' -> `./contrib/ttmath/ttmathuint_x86_64_msvc.asm' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmathint.h' -> `./contrib/ttmath/ttmathint.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmathuint_noasm.h' -> `./contrib/ttmath/ttmathuint_noasm.h' `/gnu/store/l708j4n681qxnqi3fng6vgyag4d8mipv-freebayes-1.3.7-checkout/contrib/ttmath/ttmaththreads.h' -> `./contrib/ttmath/ttmaththreads.h' 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`/gnu/store/g3yr6jyx8biiwfl8yh8rj24c84kz4cy5-test-simple-bash-src-checkout/doc/manpage-normal.xsl' -> `test/test-simple-bash/doc/manpage-normal.xsl' `/gnu/store/g3yr6jyx8biiwfl8yh8rj24c84kz4cy5-test-simple-bash-src-checkout/doc/asciidoc.conf' -> `test/test-simple-bash/doc/asciidoc.conf' `/gnu/store/g3yr6jyx8biiwfl8yh8rj24c84kz4cy5-test-simple-bash-src-checkout/doc/manpage-base.xsl' -> `test/test-simple-bash/doc/manpage-base.xsl' `/gnu/store/g3yr6jyx8biiwfl8yh8rj24c84kz4cy5-test-simple-bash-src-checkout/doc/test-simple.bash.1' -> `test/test-simple-bash/doc/test-simple.bash.1' phase `unpack-submodule-sources' succeeded after 0.0 seconds starting phase `patch-source' phase `patch-source' succeeded after 0.0 seconds starting phase `generate-gdk-pixbuf-loaders-cache-file' phase `generate-gdk-pixbuf-loaders-cache-file' succeeded after 0.0 seconds starting phase `patch-usr-bin-file' phase `patch-usr-bin-file' succeeded after 0.0 seconds starting phase `patch-source-shebangs' patch-shebang: ./examples/pipeline.sh: changing `/bin/bash' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/bash' patch-shebang: ./python/allelebayes.py: changing `/usr/bin/env python3' to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/bin/python3' patch-shebang: ./python/dirichlet.py: changing `/usr/bin/env python3' to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/bin/python3' patch-shebang: ./python/hwe.py: changing `/usr/bin/env python3' to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/bin/python3' patch-shebang: ./python/multiset.py: changing `/usr/bin/env python3' to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/bin/python3' patch-shebang: ./scripts/bgziptabix: changing `/usr/bin/env bash' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/bash' patch-shebang: ./scripts/coverage_to_regions.py: changing `/usr/bin/env python3' to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/bin/python3' patch-shebang: ./scripts/fasta_generate_regions.py: changing `/usr/bin/env python3' to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/bin/python3' patch-shebang: ./scripts/freebayes-parallel: changing `/usr/bin/env bash' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/bash' patch-shebang: ./scripts/generate_freebayes_region_scripts.sh: changing `/bin/bash' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/bash' patch-shebang: ./scripts/sam_add_rg.pl: changing `/usr/bin/env perl' to `/gnu/store/vxb9lrvvxaqrx2lf3zsy4j4pl4yciqv5-perl-5.36.0/bin/perl' patch-shebang: ./scripts/split_ref_by_bai_datasize.py: changing `/usr/bin/env python3' to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/bin/python3' patch-shebang: ./scripts/update_version.sh: changing `/bin/sh' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/sh' patch-shebang: ./scripts/vcffirstheader: changing `/usr/bin/env python3' to `/gnu/store/h2p8ig1i6x631z9dhfxgaqa2nacar98f-python-3.10.7/bin/python3' patch-shebang: ./test/runner.sh: changing `/bin/sh' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/sh' patch-shebang: ./test/t/00_region_and_target_handling.t: changing `/usr/bin/env bash' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/bash' patch-shebang: ./test/t/01_call_variants.t: changing `/usr/bin/env bash' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/bash' patch-shebang: ./test/t/01b_call_variants.t: changing `/usr/bin/env bash' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/bash' patch-shebang: ./test/t/02_multi_bam.t: changing `/usr/bin/env bash' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/bash' patch-shebang: ./test/t/03_reference_bases.t: changing `/usr/bin/env bash' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/bash' patch-shebang: ./test/test-simple-bash/test/basics.t: changing `/bin/bash' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/bash' patch-shebang: ./test/test-simple-bash/test/doc.t: changing `/bin/bash' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/bash' patch-shebang: ./test/test-simple-bash/test/no-label.t: changing `/bin/bash' to `/gnu/store/d7q6yazfa1bxf4x7p9n3b99hn97q6bvw-bash-minimal-5.1.16/bin/bash' phase `patch-source-shebangs' succeeded after 0.1 seconds starting phase `configure' The Meson build system Version: 1.5.2 Source dir: /tmp/guix-build-freebayes-1.3.7.drv-0/source Build dir: /tmp/guix-build-freebayes-1.3.7.drv-0/build Build type: native build Project name: freebayes Project version: 1.3.6 C compiler for the host machine: gcc (gcc 11.4.0 "gcc (GCC) 11.4.0") C linker for the host machine: gcc ld.bfd 2.41 C++ compiler for the host machine: c++ (gcc 11.4.0 "c++ (GCC) 11.4.0") C++ linker for the host machine: c++ ld.bfd 2.41 Host machine cpu family: aarch64 Host machine cpu: aarch64 Found pkg-config: YES (/gnu/store/hahvgqpl61kg7jnljx217wfv54xj4fbg-pkg-config-0.29.2/bin/pkg-config) 0.29.2 Run-time dependency zlib found: YES 1.3 Run-time dependency liblzma found: YES 5.4.5 Run-time dependency threads found: YES Library tabixpp found: YES Run-time dependency htslib found: YES 1.19 Library tabixpp found: YES Run-time dependency vcflib found: YES 1.0.9 Did not find CMake 'cmake' Found CMake: NO Run-time dependency libseqlib found: NO (tried pkgconfig and cmake) Compiler for C++ supports arguments -fpermissive: YES Compiler for C++ supports arguments -Wno-reorder: YES Compiler for C++ supports arguments -Wno-sign-compare: YES Compiler for C++ supports arguments -Wno-unused-variable: YES Compiler for C++ supports arguments -Wno-unused-but-set-variable: YES Program prove found: YES (/gnu/store/vxb9lrvvxaqrx2lf3zsy4j4pl4yciqv5-perl-5.36.0/bin/prove) Build targets in project: 4 freebayes 1.3.6 User defined options buildtype : debugoptimized prefix : /gnu/store/vz599l989kxrly2xciymny3vmbdb3986-freebayes-1.3.7 c_link_args : -Wl,-rpath=/gnu/store/vz599l989kxrly2xciymny3vmbdb3986-freebayes-1.3.7/lib cpp_link_args: -Wl,-rpath=/gnu/store/vz599l989kxrly2xciymny3vmbdb3986-freebayes-1.3.7/lib Found ninja-1.11.1 at /gnu/store/nj5b540982y2x53g0zb6nqdddshpmx3n-ninja-1.11.1/bin/ninja phase `configure' succeeded after 3.1 seconds starting phase `patch-generated-file-shebangs' phase `patch-generated-file-shebangs' succeeded after 0.0 seconds starting phase `build' [1/35] Compiling C++ object libcustom_seqlib.a.p/contrib_SeqLib_src_ssw_cpp.cpp.o [2/35] Compiling C object libcustom_seqlib.a.p/contrib_SeqLib_src_ssw.c.o [3/35] Compiling C++ object libfreebayes_common.a.p/src_Bias.cpp.o [4/35] Compiling C++ object libfreebayes_common.a.p/src_Contamination.cpp.o [5/35] Compiling C++ object libfreebayes_common.a.p/src_Dirichlet.cpp.o [6/35] Compiling C++ object libcustom_seqlib.a.p/contrib_SeqLib_src_BamWriter.cpp.o [7/35] Compiling C++ object libfreebayes_common.a.p/src_Ewens.cpp.o [8/35] Compiling C++ object libcustom_seqlib.a.p/contrib_SeqLib_src_BamHeader.cpp.o [9/35] Compiling C++ object libfreebayes_common.a.p/src_CNV.cpp.o [10/35] Compiling C++ object libfreebayes_common.a.p/src_IndelAllele.cpp.o [11/35] Compiling C++ object libcustom_seqlib.a.p/contrib_SeqLib_src_BamRecord.cpp.o [12/35] Compiling C++ object libfreebayes_common.a.p/src_BedReader.cpp.o [13/35] Compiling C++ object libfreebayes_common.a.p/src_SegfaultHandler.cpp.o [14/35] Compiling C++ object libfreebayes_common.a.p/src_Multinomial.cpp.o [15/35] Compiling C++ object libcustom_seqlib.a.p/contrib_SeqLib_src_BamReader.cpp.o [16/35] Compiling C++ object libfreebayes_common.a.p/src_NonCall.cpp.o [17/35] Compiling C++ object libfreebayes_common.a.p/src_Result.cpp.o [18/35] Compiling C++ object libfreebayes_common.a.p/src_FBFasta.cpp.o [19/35] Compiling C++ object libfreebayes_common.a.p/src_LeftAlign.cpp.o [20/35] Compiling C++ object libfreebayes_common.a.p/src_DataLikelihood.cpp.o [21/35] Compiling C++ object libfreebayes_common.a.p/src_Parameters.cpp.o [22/35] Compiling C++ object libfreebayes_common.a.p/src_Sample.cpp.o [23/35] Compiling C++ object libfreebayes_common.a.p/src_Marginals.cpp.o [24/35] Compiling C++ object bamleftalign.p/src_bamleftalign.cpp.o [25/35] Compiling C++ object libfreebayes_common.a.p/src_Allele.cpp.o [26/35] Compiling C++ object libcustom_seqlib.a.p/contrib_SeqLib_src_GenomicRegion.cpp.o [27/35] Linking static target libcustom_seqlib.a [28/35] Compiling C++ object libfreebayes_common.a.p/src_Utility.cpp.o In file included from ../source/contrib/ttmath/ttmathint.h:48, from ../source/contrib/ttmath/ttmathbig.h:46, from ../source/contrib/ttmath/ttmath.h:58, from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: In member function ‘ttmath::UInt& ttmath::UInt::operator=(const ttmath::UInt&) [with unsigned int value_size = 2]’, inlined from ‘ttmath::Big& ttmath::Big::operator=(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3648:12, inlined from ‘ttmath::Big::Big(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3660:12, inlined from ‘ValueType ttmath::Exp(const ValueType&, ttmath::ErrorCode*) [with ValueType = ttmath::Big<8, 2>]’ at ../source/contrib/ttmath/ttmath.h:326:10, inlined from ‘BigFloat big_exp(long double)’ at ../source/src/Utility.cpp:363:25: ../source/contrib/ttmath/ttmathuint.h:2740:43: warning: ‘x.ttmath::Big<8, 2>::mantissa.ttmath::UInt<2>::table[0]’ may be used uninitialized [-Wmaybe-uninitialized] 2740 | table[i] = p.table[i]; | ~~~~~~~^ ../source/src/Utility.cpp: In function ‘BigFloat big_exp(long double)’: ../source/src/Utility.cpp:361:14: note: ‘x’ declared here 361 | BigFloat x, result; | ^ In file included from ../source/contrib/ttmath/ttmathint.h:48, from ../source/contrib/ttmath/ttmathbig.h:46, from ../source/contrib/ttmath/ttmath.h:58, from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: In member function ‘ttmath::UInt& ttmath::UInt::operator=(const ttmath::UInt&) [with unsigned int value_size = 2]’, inlined from ‘ttmath::Big& ttmath::Big::operator=(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3648:12, inlined from ‘ttmath::Big::Big(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3660:12, inlined from ‘ValueType ttmath::Exp(const ValueType&, ttmath::ErrorCode*) [with ValueType = ttmath::Big<8, 2>]’ at ../source/contrib/ttmath/ttmath.h:326:10, inlined from ‘BigFloat big_exp(long double)’ at ../source/src/Utility.cpp:363:25: ../source/contrib/ttmath/ttmathuint.h:2740:43: warning: ‘x.ttmath::Big<8, 2>::mantissa.ttmath::UInt<2>::table[1]’ may be used uninitialized [-Wmaybe-uninitialized] 2740 | table[i] = p.table[i]; | ~~~~~~~^ ../source/src/Utility.cpp: In function ‘BigFloat big_exp(long double)’: ../source/src/Utility.cpp:361:14: note: ‘x’ declared here 361 | BigFloat x, result; | ^ In file included from ../source/contrib/ttmath/ttmathint.h:48, from ../source/contrib/ttmath/ttmathbig.h:46, from ../source/contrib/ttmath/ttmath.h:58, from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: In member function ‘ttmath::UInt& ttmath::UInt::operator=(const ttmath::UInt&) [with unsigned int value_size = 2]’, inlined from ‘ttmath::Big& ttmath::Big::operator=(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3648:12, inlined from ‘ttmath::Big::Big(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3660:12, inlined from ‘ttmath::Big ttmath::Big::operator+(const ttmath::Big&) const [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:5570:15, inlined from ‘long double logsumexp_probs(const std::vector&)’ at ../source/src/Utility.cpp:381:48: ../source/contrib/ttmath/ttmathuint.h:2740:43: warning: ‘maxNb.ttmath::Big<8, 2>::mantissa.ttmath::UInt<2>::table[0]’ may be used uninitialized [-Wmaybe-uninitialized] 2740 | table[i] = p.table[i]; | ~~~~~~~^ ../source/src/Utility.cpp: In function ‘long double logsumexp_probs(const std::vector&)’: ../source/src/Utility.cpp:380:14: note: ‘maxNb’ declared here 380 | BigFloat maxNb; maxNb.FromDouble(maxN); | ^~~~~ In file included from ../source/contrib/ttmath/ttmathint.h:48, from ../source/contrib/ttmath/ttmathbig.h:46, from ../source/contrib/ttmath/ttmath.h:58, from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: In member function ‘ttmath::UInt& ttmath::UInt::operator=(const ttmath::UInt&) [with unsigned int value_size = 2]’, inlined from ‘ttmath::Big& ttmath::Big::operator=(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3648:12, inlined from ‘ttmath::Big::Big(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3660:12, inlined from ‘ttmath::Big ttmath::Big::operator+(const ttmath::Big&) const [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:5570:15, inlined from ‘long double logsumexp_probs(const std::vector&)’ at ../source/src/Utility.cpp:381:48: ../source/contrib/ttmath/ttmathuint.h:2740:43: warning: ‘maxNb.ttmath::Big<8, 2>::mantissa.ttmath::UInt<2>::table[1]’ may be used uninitialized [-Wmaybe-uninitialized] 2740 | table[i] = p.table[i]; | ~~~~~~~^ ../source/src/Utility.cpp: In function ‘long double logsumexp_probs(const std::vector&)’: ../source/src/Utility.cpp:380:14: note: ‘maxNb’ declared here 380 | BigFloat maxNb; maxNb.FromDouble(maxN); | ^~~~~ In file included from ../source/contrib/ttmath/ttmathbig.h:46, from ../source/contrib/ttmath/ttmath.h:58, from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: In member function ‘ttmath::uint ttmath::Int::FromUIntOrInt(const ttmath::UInt&, bool) [with unsigned int argument_size = 8; unsigned int value_size = 8]’, inlined from ‘ttmath::uint ttmath::Int::FromInt(const ttmath::Int&) [with unsigned int argument_size = 8; unsigned int value_size = 8]’ at ../source/contrib/ttmath/ttmathint.h:698:23, inlined from ‘ttmath::Int& ttmath::Int::operator=(const ttmath::Int&) [with unsigned int value_size = 8]’ at ../source/contrib/ttmath/ttmathint.h:772:10, inlined from ‘ttmath::Big& ttmath::Big::operator=(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3647:12, inlined from ‘ttmath::Big::Big(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3660:12, inlined from ‘ttmath::Big ttmath::Big::operator+(const ttmath::Big&) const [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:5570:15, inlined from ‘long double logsumexp_probs(const std::vector&)’ at ../source/src/Utility.cpp:381:48: ../source/contrib/ttmath/ttmathint.h:652:61: warning: ‘maxNb.ttmath::Big<8, 2>::exponent.ttmath::Int<8>::.ttmath::UInt<8>::table[0]’ may be used uninitialized [-Wmaybe-uninitialized] 652 | UInt::table[i] = p.table[i]; | ~~~~~~~^ ../source/src/Utility.cpp: In function ‘long double logsumexp_probs(const std::vector&)’: ../source/src/Utility.cpp:380:14: note: ‘maxNb’ declared here 380 | BigFloat maxNb; maxNb.FromDouble(maxN); | ^~~~~ In file included from ../source/contrib/ttmath/ttmathint.h:48, from ../source/contrib/ttmath/ttmathbig.h:46, from ../source/contrib/ttmath/ttmath.h:58, from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: In member function ‘ttmath::UInt& ttmath::UInt::operator=(const ttmath::UInt&) [with unsigned int value_size = 2]’, inlined from ‘ttmath::Big& ttmath::Big::operator=(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3648:12, inlined from ‘ttmath::Big::Big(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3660:12, inlined from ‘ValueType ttmath::Log(const ValueType&, const ValueType&, ttmath::ErrorCode*) [with ValueType = ttmath::Big<8, 2>]’ at ../source/contrib/ttmath/ttmath.h:311:9, inlined from ‘long double big2phred(const BigFloat&)’ at ../source/src/Utility.cpp:58:44: ../source/contrib/ttmath/ttmathuint.h:2740:43: warning: ‘result.ttmath::Big<8, 2>::mantissa.ttmath::UInt<2>::table[0]’ may be used uninitialized [-Wmaybe-uninitialized] 2740 | table[i] = p.table[i]; | ~~~~~~~^ In file included from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: ../source/contrib/ttmath/ttmath.h: In function ‘long double big2phred(const BigFloat&)’: ../source/contrib/ttmath/ttmath.h:288:27: note: ‘result’ declared here 288 | ValueType result; | ^~~~~~ In file included from ../source/contrib/ttmath/ttmathint.h:48, from ../source/contrib/ttmath/ttmathbig.h:46, from ../source/contrib/ttmath/ttmath.h:58, from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: In member function ‘ttmath::UInt& ttmath::UInt::operator=(const ttmath::UInt&) [with unsigned int value_size = 2]’, inlined from ‘ttmath::Big& ttmath::Big::operator=(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3648:12, inlined from ‘ttmath::Big::Big(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3660:12, inlined from ‘ValueType ttmath::Log(const ValueType&, const ValueType&, ttmath::ErrorCode*) [with ValueType = ttmath::Big<8, 2>]’ at ../source/contrib/ttmath/ttmath.h:311:9, inlined from ‘long double big2phred(const BigFloat&)’ at ../source/src/Utility.cpp:58:44: ../source/contrib/ttmath/ttmathuint.h:2740:43: warning: ‘result.ttmath::Big<8, 2>::mantissa.ttmath::UInt<2>::table[1]’ may be used uninitialized [-Wmaybe-uninitialized] 2740 | table[i] = p.table[i]; | ~~~~~~~^ In file included from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: ../source/contrib/ttmath/ttmath.h: In function ‘long double big2phred(const BigFloat&)’: ../source/contrib/ttmath/ttmath.h:288:27: note: ‘result’ declared here 288 | ValueType result; | ^~~~~~ In file included from ../source/contrib/ttmath/ttmathint.h:48, from ../source/contrib/ttmath/ttmathbig.h:46, from ../source/contrib/ttmath/ttmath.h:58, from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: In member function ‘ttmath::UInt& ttmath::UInt::operator=(const ttmath::UInt&) [with unsigned int value_size = 2]’, inlined from ‘ttmath::Big& ttmath::Big::operator=(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3648:12, inlined from ‘ttmath::Big::Big(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3660:12, inlined from ‘ValueType ttmath::Log(const ValueType&, const ValueType&, ttmath::ErrorCode*) [with ValueType = ttmath::Big<8, 2>]’ at ../source/contrib/ttmath/ttmath.h:311:9, inlined from ‘long double big2phred(const BigFloat&)’ at ../source/src/Utility.cpp:58:44: ../source/contrib/ttmath/ttmathuint.h:2740:43: warning: ‘result.ttmath::Big<8, 2>::mantissa.ttmath::UInt<2>::table[0]’ may be used uninitialized [-Wmaybe-uninitialized] 2740 | table[i] = p.table[i]; | ~~~~~~~^ In file included from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: ../source/contrib/ttmath/ttmath.h: In function ‘long double big2phred(const BigFloat&)’: ../source/contrib/ttmath/ttmath.h:288:27: note: ‘result’ declared here 288 | ValueType result; | ^~~~~~ In file included from ../source/contrib/ttmath/ttmathint.h:48, from ../source/contrib/ttmath/ttmathbig.h:46, from ../source/contrib/ttmath/ttmath.h:58, from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: In member function ‘ttmath::UInt& ttmath::UInt::operator=(const ttmath::UInt&) [with unsigned int value_size = 2]’, inlined from ‘ttmath::Big& ttmath::Big::operator=(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3648:12, inlined from ‘ttmath::Big::Big(const ttmath::Big&) [with unsigned int exp = 8; unsigned int man = 2]’ at ../source/contrib/ttmath/ttmathbig.h:3660:12, inlined from ‘ValueType ttmath::Log(const ValueType&, const ValueType&, ttmath::ErrorCode*) [with ValueType = ttmath::Big<8, 2>]’ at ../source/contrib/ttmath/ttmath.h:311:9, inlined from ‘long double big2phred(const BigFloat&)’ at ../source/src/Utility.cpp:58:44: ../source/contrib/ttmath/ttmathuint.h:2740:43: warning: ‘result.ttmath::Big<8, 2>::mantissa.ttmath::UInt<2>::table[1]’ may be used uninitialized [-Wmaybe-uninitialized] 2740 | table[i] = p.table[i]; | ~~~~~~~^ In file included from ../source/src/Utility.h:18, from ../source/src/Utility.cpp:3: ../source/contrib/ttmath/ttmath.h: In function ‘long double big2phred(const BigFloat&)’: ../source/contrib/ttmath/ttmath.h:288:27: note: ‘result’ declared here 288 | ValueType result; | ^~~~~~ [29/35] Compiling C++ object libfreebayes_common.a.p/src_Genotype.cpp.o [30/35] Compiling C++ object libfreebayes_common.a.p/src_ResultData.cpp.o [31/35] Compiling C++ object freebayes.p/src_freebayes.cpp.o [32/35] Compiling C++ object libfreebayes_common.a.p/src_AlleleParser.cpp.o [33/35] Linking static target libfreebayes_common.a [34/35] Linking target bamleftalign [35/35] Linking target freebayes phase `build' succeeded after 53.7 seconds starting phase `check' ninja: Entering directory `/tmp/guix-build-freebayes-1.3.7.drv-0/build' ninja: no work to do. 1/5 T03 FAIL 0.44s exit status 1 >>> MESON_TEST_ITERATION=1 ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MALLOC_PERTURB_=204 /gnu/store/vxb9lrvvxaqrx2lf3zsy4j4pl4yciqv5-perl-5.36.0/bin/prove -e bash -v t/03_reference_bases.t 2/5 T00 FAIL 0.68s exit status 1 >>> MALLOC_PERTURB_=4 MESON_TEST_ITERATION=1 ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 /gnu/store/vxb9lrvvxaqrx2lf3zsy4j4pl4yciqv5-perl-5.36.0/bin/prove -e bash -v t/00_region_and_target_handling.t 3/5 T02 FAIL 1.06s exit status 1 >>> MESON_TEST_ITERATION=1 ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MALLOC_PERTURB_=88 /gnu/store/vxb9lrvvxaqrx2lf3zsy4j4pl4yciqv5-perl-5.36.0/bin/prove -e bash -v t/02_multi_bam.t 4/5 T01 FAIL 1.40s exit status 1 >>> MESON_TEST_ITERATION=1 ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MALLOC_PERTURB_=94 /gnu/store/vxb9lrvvxaqrx2lf3zsy4j4pl4yciqv5-perl-5.36.0/bin/prove -e bash -v t/01_call_variants.t 5/5 T01b FAIL 2.06s exit status 1 >>> MESON_TEST_ITERATION=1 ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MALLOC_PERTURB_=140 MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 /gnu/store/vxb9lrvvxaqrx2lf3zsy4j4pl4yciqv5-perl-5.36.0/bin/prove -e bash -v t/01b_call_variants.t Ok: 0 Expected Fail: 0 Fail: 5 Unexpected Pass: 0 Skipped: 0 Timeout: 0 Full log written to /tmp/guix-build-freebayes-1.3.7.drv-0/build/meson-logs/testlog.txt error: in phase 'check': uncaught exception: %exception #<&invoke-error program: "meson" arguments: ("test" "--timeout-multiplier" "5") exit-status: 5 term-signal: #f stop-signal: #f> phase `check' failed after 2.9 seconds command "meson" "test" "--timeout-multiplier" "5" failed with status 5 build process 18 exited with status 256