Andreas Tille pushed to branch master at Debian Med / nanolyse
Commits: e715d8ae by Andreas Tille at 2020-06-24T18:17:27+02:00 Get some rudimentary autopkgtest working - - - - - 25572efd by Andreas Tille at 2020-06-24T18:18:44+02:00 Add FIXME - - - - - 0c01ca75 by Andreas Tille at 2020-06-24T18:20:34+02:00 cleanup after running - - - - - 5 changed files: - + debian/docs - + debian/examples - + debian/tests/data/README - + debian/tests/data/paired_reads.fastq - debian/tests/run-unit-test Changes: ===================================== debian/docs ===================================== @@ -0,0 +1,2 @@ +debian/README.test +debian/tests/run-unit-test ===================================== debian/examples ===================================== @@ -0,0 +1 @@ +debian/tests/data/* ===================================== debian/tests/data/README ===================================== @@ -0,0 +1,6 @@ +This fastq file was taken from package ncbi-blast+ + c++/src/algo/blast/blastinput/unit_test/data/paired_reads.fastq + +FIXME: I have no idea whether this data set makes any sense at all. + + -- Andreas Tille <[email protected]> Fri, 15 May 2020 15:27:17 +0200 ===================================== debian/tests/data/paired_reads.fastq ===================================== @@ -0,0 +1,24 @@ +@pair1 (both are read) +GAATGTCCGTCTGGGTCTCCTTGTGCTGCGGTCCTGGCAACTCGTAGAATTTCTTACCAAAGTATCGATCCGGGAGATAGTACGATGGATACTCCGCCCTCAGCCTCTCG ++pair1 +BBBBBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFBFFFF<FFFFFFFFFFFFFFFFBFFFFF<FFFFFFFFFFFFFFFFFFFFFFFF +@pair2 +ATGTTTTCCGATCCCGCCCAGGAGTCGGTTGCCACGCAGACGGAGGCACAACCGGTTCCGTCGCCCATCTGCACCCCACTGCTGATGGTGGACGAGGATGGACGAAAGCG ++pair2 +BBBBBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFBFFFF<FFFFFFFFFFFFFFFFBFFFFF<FFFFFFFFFFFFFFFFFFFFFFFF [email protected] (only the first is accepted) +ATGTTTTCCGATCCCGCCCAGGAGTCGGTTGCCACGCAGACGGAGGCACAACCGGTTCCGTCGCCCATCTGCACCCCACTGCTGATGGTGGACGAGGATGGACGAAAGCG ++incomplete1.1 +BBBBBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFBFFFF<FFFFFFFFFFFFFFFFBFFFFF<FFFFFFFFFFFFFFFFFFFFFFFF [email protected] +CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC ++incomplete1.2 +BBBBBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFBFFFF<FFFFFFFFFFFFFFFFBFFFFFF [email protected] (only the second is accepted) +CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC ++incomplete2.1 +BBBBBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFBFFFF<FFFFFFFFFFFFFFFFBFFFFFF [email protected] +ATGTTTTCCGATCCCGCCCAGGAGTCGGTTGCCACGCAGACGGAGGCACAACCGGTTCCGTCGCCCATCTGCACCCCACTGCTGATGGTGGACGAGGATGGACGAAAGCG ++incomplete2.2 +BBBBBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFBFFFF<FFFFFFFFFFFFFFFFBFFFFF<FFFFFFFFFFFFFFFFFFFFFFFF ===================================== debian/tests/run-unit-test ===================================== @@ -11,5 +11,4 @@ fi cd "${AUTOPKGTEST_TMP}" -gunzip -c /usr/share/${pkg}/reference/lambda.fasta.gz > lambda.fasta -cat lambda.fasta | NanoLyse > reads_without_lambda.fastq +cat paired_reads.fastq | NanoLyse > reads_without_lambda.fastq View it on GitLab: https://salsa.debian.org/med-team/nanolyse/-/compare/e8eb16bedd156400e79ab24cadaf2176e6451f63...0c01ca756817f05bf1ce45b4f5c813020fbc0c92 -- View it on GitLab: https://salsa.debian.org/med-team/nanolyse/-/compare/e8eb16bedd156400e79ab24cadaf2176e6451f63...0c01ca756817f05bf1ce45b4f5c813020fbc0c92 You're receiving this email because of your account on salsa.debian.org.
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