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Amrfinder tests #85

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merged 4 commits into from
Aug 2, 2023
Merged

Amrfinder tests #85

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3e23af6
Adding a test script for amrfinder
andrewdavidsmith Aug 2, 2023
9d27059
Adding test data for amrfinder which includes one obvious amr
andrewdavidsmith Aug 2, 2023
10fc41a
configure.ac and Makefile.am: modifications for tests for amrfinder
andrewdavidsmith Aug 2, 2023
465eb24
md5sums: Adding the checksum for the amr output file for amrfinder tests
andrewdavidsmith Aug 2, 2023
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10 changes: 6 additions & 4 deletions Makefile.am
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Original file line number Diff line number Diff line change
Expand Up @@ -74,7 +74,8 @@ EXTRA_DIST = \
test_scripts/test_roi.test \
test_scripts/test_selectsites.test \
test_scripts/test_radmeth.test \
test_scripts/test_states.test
test_scripts/test_states.test \
test_scripts/test_amrfinder.test

### ADS: the file md5sum.txt can be regenerated by running the tests
### with "make check" and then doing `md5sum tests/* > md5sum.txt`
Expand All @@ -101,7 +102,8 @@ TESTS = test_scripts/test_simreads.test \
test_scripts/test_roi.test \
test_scripts/test_selectsites.test \
test_scripts/test_radmeth.test \
test_scripts/test_states.test
test_scripts/test_states.test \
test_scripts/test_amrfinder.test

TEST_EXTENSIONS = .test

Expand Down Expand Up @@ -158,7 +160,6 @@ libdnmtools_a_SOURCES += \
src/radmeth/radmeth_optimize.hpp \
src/radmeth/radmeth_model.hpp


LDADD = libdnmtools.a src/abismal/libabismal.a src/smithlab_cpp/libsmithlab_cpp.a

bin_PROGRAMS = dnmtools
Expand Down Expand Up @@ -225,4 +226,5 @@ CLEANFILES = \
tests/tRex1_promoters.roi.bed \
tests/reads.counts.select \
tests/radmeth_test_output.txt \
tests/reads.epiread
tests/reads.epiread \
tests/two_epialleles.amr
3 changes: 3 additions & 0 deletions configure.ac
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Expand Up @@ -68,6 +68,7 @@ AC_SEARCH_LIBS([gsl_blas_dgemm], [gsl], [], [AC_MSG_FAILURE([$gsl_fail_msg])])
AC_CONFIG_FILES([
Makefile
])

dnl make the test data files available in the build tree
AC_CONFIG_LINKS([
tests/md5sum.txt:data/md5sum.txt
Expand All @@ -77,5 +78,7 @@ tests/reads_1.fq.gz:data/reads_1.fq.gz
tests/reads_2.fq.gz:data/reads_2.fq.gz
tests/radmeth_test_table.txt:data/radmeth_test_table.txt
tests/radmeth_test_design.txt:data/radmeth_test_design.txt
tests/two_epialleles.states:data/two_epialleles.states
])

AC_OUTPUT
1 change: 1 addition & 0 deletions data/md5sum.txt
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Expand Up @@ -16,3 +16,4 @@ b067a733102e611ca614ae22fc944471 tests/reads.ustats
b5270bb38d798741cfa74f411a0d49bf tests/tRex1_promoters.roi.bed
575f7daf8062c4aa3194370488794be8 tests/reads.bsrate
5f6bd7100470c5306b41b6a56fe6690e tests/reads.epiread
e7e9590475a7f9b1ae41701d81892e57 tests/two_epialleles.amr
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