From 459c5ec3b19767b96ef11225d60b0964c467f3b1 Mon Sep 17 00:00:00 2001 From: Renato Alves Date: Thu, 29 Oct 2020 16:20:23 +0100 Subject: [PATCH] pythonPackages.pysam: Disable failing tests unrelated to packaging These will be fixed upstream and are due to format changes introduced in samtools and htslib 1.11 --- pkgs/development/python-modules/pysam/default.nix | 12 +++++++++--- 1 file changed, 9 insertions(+), 3 deletions(-) diff --git a/pkgs/development/python-modules/pysam/default.nix b/pkgs/development/python-modules/pysam/default.nix index 2802b6d0e0f..2f40a297333 100644 --- a/pkgs/development/python-modules/pysam/default.nix +++ b/pkgs/development/python-modules/pysam/default.nix @@ -80,13 +80,19 @@ buildPythonPackage rec { --deselect tests/AlignmentFileHeader_test.py::TestHeaderBAM::test_header_content_is_as_expected \ --deselect tests/AlignmentFileHeader_test.py::TestHeaderCRAM::test_dictionary_access_works \ --deselect tests/AlignmentFileHeader_test.py::TestHeaderCRAM::test_header_content_is_as_expected \ - --deselect tests/AlignmentFile_test.py::TestIO::testBAM2SAM \ - --deselect tests/AlignmentFile_test.py::TestIO::testSAM2BAM \ - --deselect tests/AlignmentFile_test.py::TestIO::testWriteUncompressedBAMFile \ --deselect tests/AlignmentFile_test.py::TestDeNovoConstruction::testBAMWholeFile \ --deselect tests/AlignmentFile_test.py::TestEmptyHeader::testEmptyHeader \ --deselect tests/AlignmentFile_test.py::TestHeaderWithProgramOptions::testHeader \ + --deselect tests/AlignmentFile_test.py::TestIO::testBAM2BAM \ + --deselect tests/AlignmentFile_test.py::TestIO::testBAM2CRAM \ + --deselect tests/AlignmentFile_test.py::TestIO::testBAM2SAM \ + --deselect tests/AlignmentFile_test.py::TestIO::testFetchFromClosedFileObject \ + --deselect tests/AlignmentFile_test.py::TestIO::testOpenFromFilename \ + --deselect tests/AlignmentFile_test.py::TestIO::testSAM2BAM \ + --deselect tests/AlignmentFile_test.py::TestIO::testWriteUncompressedBAMFile \ + --deselect tests/AlignmentFile_test.py::TestIteratorRowAllBAM::testIterate \ --deselect tests/StreamFiledescriptors_test.py::StreamTest::test_text_processing \ + --deselect tests/compile_test.py::BAMTest::testCount \ tests/ '';