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/djxka8lxrllfbmnha6nnx9vl09hk8cz0-r-minimal-4.0.4/bin:/gnu/store/v6f44zccwh9z5zk3pjlywjybbi8n2hjh-tar-1.32/bin:/gnu/store/ncydgq2znms5n1d2k5yqshhf58nsixwv-gzip-1.10/bin:/gnu/store/i8h2pcxqdq07ijm3ibkka8f4smn1w48v-bzip2-1.0.8/bin:/gnu/store/9860f1abqj8wjjnwl8a9v54pdcc3bhgf-xz-5.2.4/bin:/gnu/store/60g7r3l01fd7c58yjbm6krgcwj1jkpwg-file-5.38/bin:/gnu/store/n4n560pfvvw50a9369axw5vj5rrqfj1n-diffutils-3.7/bin:/gnu/store/cd5qf3kcnlq35p9k392pjdpdzpsnds70-patch-2.7.6/bin:/gnu/store/hic7snhayfl7m6cpfqqr73nmm19bpqkg-findutils-4.7.0/bin:/gnu/store/swqdvwri9dbv6zssg6v0by7l05hd6wxp-gawk-5.0.1/bin:/gnu/store/ishk7fswcs4gkwcp8mh788z4mvvl9bxh-sed-4.8/bin:/gnu/store/bhs4rj58v8j1narb2454raan2ps38xd8-grep-3.4/bin:/gnu/store/57xj5gcy1jbl9ai2lnrqnpr0dald9i65-coreutils-8.32/bin:/gnu/store/hm40bxnv8jxmbc1lpb7zfimii4xm9m81-make-4.3/bin:/gnu/store/pwcp239kjf7lnj5i4lkdzcfcxwcfyk72-bash-minimal-5.0.16/bin:/gnu/store/mpa04aq8lblbcviyxywxcsb1zbi0mf39-ld-wrapper-0/bin:/gnu/store/m1z7cdbqsqyp9xnjw5cvlb4a7gkcg3m4-binutils-2.34/bin:/gnu/store/rn75fm7adgx3pw5j8pg3bczfqq1y17lk-gcc-7.5.0/bin:/gnu/store/fa6wj5bxkj5ll1d7292a70knmyl7a0cr-glibc-2.31/bin:/gnu/store/fa6wj5bxkj5ll1d7292a70knmyl7a0cr-glibc-2.31/sbin'
environment variable `R_LIBS_SITE' set to 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environment variable `BASH_LOADABLES_PATH' unset
environment variable `C_INCLUDE_PATH' set to `/gnu/store/i8h2pcxqdq07ijm3ibkka8f4smn1w48v-bzip2-1.0.8/include:/gnu/store/9860f1abqj8wjjnwl8a9v54pdcc3bhgf-xz-5.2.4/include:/gnu/store/60g7r3l01fd7c58yjbm6krgcwj1jkpwg-file-5.38/include:/gnu/store/swqdvwri9dbv6zssg6v0by7l05hd6wxp-gawk-5.0.1/include:/gnu/store/hm40bxnv8jxmbc1lpb7zfimii4xm9m81-make-4.3/include:/gnu/store/m1z7cdbqsqyp9xnjw5cvlb4a7gkcg3m4-binutils-2.34/include:/gnu/store/rn75fm7adgx3pw5j8pg3bczfqq1y17lk-gcc-7.5.0/include:/gnu/store/fa6wj5bxkj5ll1d7292a70knmyl7a0cr-glibc-2.31/include:/gnu/store/gfapkk5c6hvl1d94m4sqnhn7f9l5gqyh-linux-libre-headers-5.4.20/include'
environment variable `CPLUS_INCLUDE_PATH' set to `/gnu/store/i8h2pcxqdq07ijm3ibkka8f4smn1w48v-bzip2-1.0.8/include:/gnu/store/9860f1abqj8wjjnwl8a9v54pdcc3bhgf-xz-5.2.4/include:/gnu/store/60g7r3l01fd7c58yjbm6krgcwj1jkpwg-file-5.38/include:/gnu/store/swqdvwri9dbv6zssg6v0by7l05hd6wxp-gawk-5.0.1/include:/gnu/store/hm40bxnv8jxmbc1lpb7zfimii4xm9m81-make-4.3/include:/gnu/store/m1z7cdbqsqyp9xnjw5cvlb4a7gkcg3m4-binutils-2.34/include:/gnu/store/rn75fm7adgx3pw5j8pg3bczfqq1y17lk-gcc-7.5.0/include/c++:/gnu/store/rn75fm7adgx3pw5j8pg3bczfqq1y17lk-gcc-7.5.0/include:/gnu/store/fa6wj5bxkj5ll1d7292a70knmyl7a0cr-glibc-2.31/include:/gnu/store/gfapkk5c6hvl1d94m4sqnhn7f9l5gqyh-linux-libre-headers-5.4.20/include'
environment variable `LIBRARY_PATH' set to `/gnu/store/djxka8lxrllfbmnha6nnx9vl09hk8cz0-r-minimal-4.0.4/lib:/gnu/store/i8h2pcxqdq07ijm3ibkka8f4smn1w48v-bzip2-1.0.8/lib:/gnu/store/9860f1abqj8wjjnwl8a9v54pdcc3bhgf-xz-5.2.4/lib:/gnu/store/60g7r3l01fd7c58yjbm6krgcwj1jkpwg-file-5.38/lib:/gnu/store/swqdvwri9dbv6zssg6v0by7l05hd6wxp-gawk-5.0.1/lib:/gnu/store/m1z7cdbqsqyp9xnjw5cvlb4a7gkcg3m4-binutils-2.34/lib:/gnu/store/fa6wj5bxkj5ll1d7292a70knmyl7a0cr-glibc-2.31/lib:/gnu/store/s3dcqzwqaakv1yx37by9chksdbkgih17-glibc-2.31-static/lib:/gnu/store/hwcky7446s952w0mwchhmm211ll07zrq-glibc-utf8-locales-2.31/lib'
environment variable `GUIX_LOCPATH' set to `/gnu/store/hwcky7446s952w0mwchhmm211ll07zrq-glibc-utf8-locales-2.31/lib/locale'
phase `set-paths' succeeded after 0.0 seconds
starting phase `install-locale'
using 'en_US.utf8' locale for category "LC_ALL"
phase `install-locale' succeeded after 0.0 seconds
starting phase `unpack'
haplo.stats/
haplo.stats/NAMESPACE
haplo.stats/README.md
haplo.stats/data/
haplo.stats/data/seqhap.dat.tab.gz
haplo.stats/data/seqhap.pos.tab.gz
haplo.stats/data/hapPower.demo.tab.gz
haplo.stats/data/hla.demo.tab.gz
haplo.stats/man/
haplo.stats/man/print.haplo.score.merge.Rd
haplo.stats/man/haplo.score.Rd
haplo.stats/man/chisq.power.Rd
haplo.stats/man/haplo.glm.Rd
haplo.stats/man/haplo.em.control.Rd
haplo.stats/man/hla.demo.Rd
haplo.stats/man/print.haplo.em.Rd
haplo.stats/man/internalHaploStats.Rd
haplo.stats/man/plot.haplo.score.slide.Rd
haplo.stats/man/setupGeno.Rd
haplo.stats/man/haplo.scan.Rd
haplo.stats/man/residuals.haplo.glm.Rd
haplo.stats/man/summary.haplo.em.Rd
haplo.stats/man/haplo.model.frame.Rd
haplo.stats/man/f.power.Rd
haplo.stats/man/haplo.power.cc.Rd
haplo.stats/man/printBanner.Rd
haplo.stats/man/haplo.cc.Rd
haplo.stats/man/summaryGeno.Rd
haplo.stats/man/find.haplo.beta.qt.Rd
haplo.stats/man/print.haplo.cc.Rd
haplo.stats/man/plot.haplo.score.Rd
haplo.stats/man/louis.info.Rd
haplo.stats/man/vcov.haplo.glm.Rd
haplo.stats/man/summary.haplo.glm.Rd
haplo.stats/man/haplo.hash.Rd
haplo.stats/man/seqhap.Rd
haplo.stats/man/get.hapPair.Rd
haplo.stats/man/haplo.score.slide.Rd
haplo.stats/man/haplo.power.qt.Rd
haplo.stats/man/haplo.design.Rd
haplo.stats/man/haplo.em.Rd
haplo.stats/man/plot.seqhap.Rd
haplo.stats/man/fitted.haplo.glm.Rd
haplo.stats/man/haplo.score.merge.Rd
haplo.stats/man/print.haplo.scan.Rd
haplo.stats/man/print.haplo.score.Rd
haplo.stats/man/locus.Rd
haplo.stats/man/Ginv.Rd
haplo.stats/man/hapPower.demo.Rd
haplo.stats/man/haplo.em.fitter.Rd
haplo.stats/man/x.sexcheck.Rd
haplo.stats/man/seqhap.dat.Rd
haplo.stats/man/print.haplo.group.Rd
haplo.stats/man/na.geno.keep.Rd
haplo.stats/man/haplo.glm.control.Rd
haplo.stats/man/locator.haplo.Rd
haplo.stats/man/score.sim.control.Rd
haplo.stats/man/anova.haplo.glm.Rd
haplo.stats/man/geno1to2.Rd
haplo.stats/man/print.haplo.score.slide.Rd
haplo.stats/man/geno.count.pairs.Rd
haplo.stats/man/haplo.group.Rd
haplo.stats/DESCRIPTION
haplo.stats/build/
haplo.stats/build/vignette.rds
haplo.stats/tests/
haplo.stats/tests/expanded/
haplo.stats/tests/expanded/test.summaryGeno.R
haplo.stats/tests/expanded/snapData.csv
haplo.stats/tests/expanded/test.haplo.scan.R
haplo.stats/tests/expanded/test.haplo.glm.R
haplo.stats/tests/expanded/snap.sim.phased.dat
haplo.stats/tests/expanded/test.summaryGeno.Rout.save
haplo.stats/tests/expanded/test.haplo.cc.R
haplo.stats/tests/expanded/dump.varx.s
haplo.stats/tests/expanded/test.anova.haplo.glm.R
haplo.stats/tests/expanded/test.haplo.score.Rout.save
haplo.stats/tests/expanded/test.haplo.glm.Rout.save
haplo.stats/tests/expanded/snapFUN.s
haplo.stats/tests/expanded/test.haplo.design.Rout.save
haplo.stats/tests/expanded/test.seqhap.R
haplo.stats/tests/expanded/test.methods.haplo.glm.R
haplo.stats/tests/expanded/test.haplo.cc.Rout.save
haplo.stats/tests/expanded/test.haplo.scan.Rout.save
haplo.stats/tests/expanded/test.haplo.design.R
haplo.stats/tests/expanded/test.haplo.power.R
haplo.stats/tests/expanded/test.haplo.score.R
haplo.stats/tests/expanded/test.haplo.em.Rout.save
haplo.stats/tests/expanded/test.Ginv.Rout.save
haplo.stats/tests/expanded/test.methods.haplo.glm.Rout.save
haplo.stats/tests/expanded/test.haplo.score.slide.Rout.save
haplo.stats/tests/expanded/test.seqhap.Rout.save
haplo.stats/tests/expanded/test.haplo.em.R
haplo.stats/tests/expanded/test.anova.haplo.glm.Rout.save
haplo.stats/tests/expanded/test.Ginv.R
haplo.stats/tests/expanded/test.haplo.score.slide.R
haplo.stats/tests/testthat/
haplo.stats/tests/testthat/fit.gaus.gender.rds
haplo.stats/tests/testthat/fit.gaus.inter.rds
haplo.stats/tests/testthat/test.haplo.glm.R
haplo.stats/tests/testthat/test.haplo.cc.R
haplo.stats/tests/testthat/powercc.rds
haplo.stats/tests/testthat/cc.test.rds
haplo.stats/tests/testthat/test.haplo.power.R
haplo.stats/tests/testthat/cc.hla.adj.rds
haplo.stats/tests/testthat.R
haplo.stats/src/
haplo.stats/src/groupsum.c
haplo.stats/src/haplo_em_pin.c
haplo.stats/src/louis_info.c
haplo.stats/src/haplo_em_pin.h
haplo.stats/src/haplo.stats_init.c
haplo.stats/src/seqhap.c
haplo.stats/vignettes/
haplo.stats/vignettes/haplostats.Rnw
haplo.stats/vignettes/manualHaploStats.pdf
haplo.stats/R/
haplo.stats/R/haplo.score.slide.q
haplo.stats/R/haplo.score.glm.q
haplo.stats/R/Ginv.R
haplo.stats/R/louis.info.q
haplo.stats/R/residScaledGlmFit.q
haplo.stats/R/print.haplo.score.slide.q
haplo.stats/R/print.haplo.group.q
haplo.stats/R/haplo.model.frame.q
haplo.stats/R/na.geno.keep.q
haplo.stats/R/print.haplo.score.merge.q
haplo.stats/R/haplo.em.control.q
haplo.stats/R/x.sexcheck.q
haplo.stats/R/geno1to2.q
haplo.stats/R/haplo.power.cc.q
haplo.stats/R/haplo.em.q
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haplo.stats/R/haplo.design.q
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haplo.stats/R/haplo.binomial.R
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haplo.stats/R/locus.q
haplo.stats/R/print.seqhap.q
haplo.stats/R/haplo.scan.obs.q
haplo.stats/R/haplo.em.fitter.q
haplo.stats/R/haplo.glm.control.q
haplo.stats/R/residuals.haplo.glm.q
haplo.stats/R/haplo.hash.q
haplo.stats/R/plot.seqhap.q
haplo.stats/R/f.power.q
haplo.stats/R/haplo.glm.q
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haplo.stats/R/score.sim.control.q
haplo.stats/R/dglm.fit.q
haplo.stats/R/haplo.power.qt.ncp.q
haplo.stats/R/find.haplo.beta.qt.q
haplo.stats/R/get.hapPair.q
haplo.stats/R/haplo.power.qt.q
haplo.stats/R/haplo.scan.sim.q
haplo.stats/R/print.haplo.score.q
haplo.stats/R/haplo.chistat.q
haplo.stats/R/summaryGeno.q
haplo.stats/R/haplo.scan.q
haplo.stats/R/summary.haplo.em.q
haplo.stats/R/geno.count.pairs.q
haplo.stats/R/varfunc.glm.fit.q
haplo.stats/R/print.haplo.em.q
haplo.stats/R/mf.gindx.q
haplo.stats/R/haplo.score.q
haplo.stats/R/zzz.haplo.stats.R
haplo.stats/R/haplo.power.cc.ncp.q
haplo.stats/R/seqhap.q
haplo.stats/R/setupGeno.q
haplo.stats/R/plot.haplo.score.q
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haplo.stats/R/print.haplo.cc.q
haplo.stats/R/haplo.score.podds.q
haplo.stats/R/haplo.cc.q
haplo.stats/R/print.haplo.scan.q
haplo.stats/R/haplo.group.q
haplo.stats/MD5
haplo.stats/inst/
haplo.stats/inst/doc/
haplo.stats/inst/doc/manualHaploStats.rnwsave
haplo.stats/inst/doc/haplostats.pdf
haplo.stats/inst/doc/LICENSE.mayo
haplo.stats/inst/doc/haplostats.Rnw
haplo.stats/inst/doc/manualHaploStats.pdf.asis
haplo.stats/inst/doc/GPL.txt
haplo.stats/inst/NEWS.Rd
phase `unpack' succeeded after 1.8 seconds
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starting phase `install'
* installing *source* package ‘haplo.stats’ ...
** package ‘haplo.stats’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
gcc -I"/gnu/store/djxka8lxrllfbmnha6nnx9vl09hk8cz0-r-minimal-4.0.4/lib/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -c groupsum.c -o groupsum.o
gcc -I"/gnu/store/djxka8lxrllfbmnha6nnx9vl09hk8cz0-r-minimal-4.0.4/lib/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -c haplo.stats_init.c -o haplo.stats_init.o
gcc -I"/gnu/store/djxka8lxrllfbmnha6nnx9vl09hk8cz0-r-minimal-4.0.4/lib/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -c haplo_em_pin.c -o haplo_em_pin.o
gcc -I"/gnu/store/djxka8lxrllfbmnha6nnx9vl09hk8cz0-r-minimal-4.0.4/lib/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -c louis_info.c -o louis_info.o
gcc -I"/gnu/store/djxka8lxrllfbmnha6nnx9vl09hk8cz0-r-minimal-4.0.4/lib/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -c seqhap.c -o seqhap.o
gcc -shared -L/gnu/store/djxka8lxrllfbmnha6nnx9vl09hk8cz0-r-minimal-4.0.4/lib/R/lib -L/usr/local/lib -o haplo.stats.so groupsum.o haplo.stats_init.o haplo_em_pin.o louis_info.o seqhap.o -L/gnu/store/djxka8lxrllfbmnha6nnx9vl09hk8cz0-r-minimal-4.0.4/lib/R/lib -lR
installing to /gnu/store/q5jdf3irnnxsgm8alam55kf3isqd81z6-r-haplo-stats-1.8.6/site-library/00LOCK-haplo.stats/00new/haplo.stats/libs
** R
** data
** inst
** tests
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (haplo.stats)
phase `install' succeeded after 20.2 seconds
starting phase `check'
Testing examples for package ‘haplo.stats’
Running specific tests for package ‘haplo.stats’
  Running ‘testthat.R’
phase `check' succeeded after 12.5 seconds
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starting phase `patch-dot-desktop-files'
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starting phase `install-license-files'
installing 0 license files from '.'
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