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make test fails #1

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negenseq opened this issue Mar 12, 2021 · 2 comments
Open

make test fails #1

negenseq opened this issue Mar 12, 2021 · 2 comments
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@negenseq
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negenseq commented Mar 12, 2021

I have tried to download ora using the perl option and the make option, on 2 separate computers. When it goes to run t/test.t it fails, error message below. It still gives me this message even after adjusting the default softwares in the ORA.pm file as shown below (because that's what I have to type to run the executable from the PATH):
my $tfastx = 'tfastx36.exe';
my $fastx = 'fastx36.exe';

Use of unitialized value $fasta in -x at /mnt/c/Users/USER/ora/blib/Bio/ORA.pm, line 560
no FASTA hit for 10

t/test.t .. 1/1
Failed test 'Run test (dog chromosome 10)'
at t/test.t line 22.
Looks like you failed 1 test out of 1.
t/test.t .. Dubious, test returned 1 (wstat 256, 0x100)

Test Summary Report
t/test.t (Wstat: 256 Tests: 1 Failed: 1)
Failed test: 1
Non-zero exit status: 1
Files=1, Testss=1, 103 wallclock secs (0.02 usr 0.03 sys + 1.17 cusr 0.89 cys=2.11 cpu)
result: FAIL
Failed 1/1 test programs. 1/1 subtests failed.
Makefile: 889: recipie for target 'test_dynamic' failed
make: *** [test_dynamic] Error 1

@pseudogene
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Windows... the tool (and the tests) have never been tested on a Windows platform. I assume the problem is with the file paths. To fix it, the package needs to be updated in its entirety. Is it possible to test on a system that isn't running Windows? or in a Docker?

@pseudogene pseudogene self-assigned this Mar 12, 2021
@negenseq
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I was running it through ubuntu

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