Issue with make test - Blast and UnionFinder
cahende opened this issue · 1 comments
cahende commented
Hello - I am having an issue with installing transposome, and it appears to be related to the blast and unionfinder modules, however these are installed appropriately on my system. Any advice on how to proceed would be helpful!
PERL_DL_NONLAZY=1 "/cache/home/ch943/bin/miniconda/envs/bioinfo/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(0, 'blib/lib', 'blib/arch')" t/*.t
t/00-load.t ............ 2/13 # Testing Transposome 0.12.1, Perl 5.026002, /cache/home/ch943/bin/miniconda/envs/bioinfo/bin/perl
t/00-load.t ............ ok
t/01-utils_config.t .... ok
t/02-utils_seq.t ....... ok
t/03-utils_blast.t ..... ok
t/04-seqio.t ........... ok
t/05-seqio-fasta-fh.t .. ok
t/06-seqio-fastq-fh.t .. ok
t/07-seqstore.t ........ ok
t/08-seqsample.t ....... ok
t/09-megablast.t ....... 1/8 No such file or directory .../../bin at /scratch/ch943/downloadSRA/Transposome/blib/lib/Transposome/Run/Blast.pm line 165.
# Looks like your test exited with 2 just after 1.
t/09-megablast.t ....... Dubious, test returned 2 (wstat 512, 0x200)
Failed 7/8 subtests
t/10-pairfinder.t ...... ok
t/11-cluster.t ......... 1/? Can't use string ("CL19_3") as an ARRAY ref while "strict refs" in use at /cache/home/ch943/bin/miniconda/envs/bioinfo/lib/site_perl/5.26.2/Graph/UnionFind.pm line 53.
# Looks like your test exited with 255 just after 24.
t/11-cluster.t ......... Dubious, test returned 255 (wstat 65280, 0xff00)
All 24 subtests passed
t/12-annotation.t ...... 1/56 Can't use string ("CL24_3") as an ARRAY ref while "strict refs" in use at /cache/home/ch943/bin/miniconda/envs/bioinfo/lib/site_perl/5.26.2/Graph/UnionFind.pm line 53.
# Looks like your test exited with 255 just after 5.
t/12-annotation.t ...... Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 51/56 subtests
t/13-allmethods.t ...... 1/34 No such file or directory .../../bin at /scratch/ch943/downloadSRA/Transposome/blib/lib/Transposome/Run/Blast.pm line 165.
# Looks like your test exited with 2 just after 19.
t/13-allmethods.t ...... Dubious, test returned 2 (wstat 512, 0x200)
Failed 15/34 subtests
t/14-analysis_steps.t .. ok
t/15-pipeline.t ........ ok
Test Summary Report
-------------------
t/09-megablast.t (Wstat: 512 Tests: 1 Failed: 0)
Non-zero exit status: 2
Parse errors: Bad plan. You planned 8 tests but ran 1.
t/11-cluster.t (Wstat: 65280 Tests: 24 Failed: 0)
Non-zero exit status: 255
t/12-annotation.t (Wstat: 65280 Tests: 5 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 56 tests but ran 5.
t/13-allmethods.t (Wstat: 512 Tests: 19 Failed: 0)
Non-zero exit status: 2
Parse errors: Bad plan. You planned 34 tests but ran 19.
Files=16, Tests=1003, 15 wallclock secs ( 0.19 usr 0.05 sys + 12.82 cusr 2.07 csys = 15.13 CPU)
Result: FAIL
Failed 4/16 test programs. 0/1003 subtests failed.
make: *** [Makefile:1071: test_dynamic] Error 255
sestaton commented
Can you share how you installed this? Thanks.