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CartwrightLab / dawg

Simulating Sequence Evolution
GNU General Public License v2.0
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Test script fails #56

Open tillea opened 6 years ago

tillea commented 6 years ago

Hi, if I'm calling the test script tests/test0.sh I get the following diff:

2,3c2,3
< TCCTTGACCAGTTAGCAAGACGATATGCATCAAGTGCACTGGC---GTAAGTCTTTTTAC
< GCTGATCATA--TAGTCCGTATAGTCACTGAACGCCGTCCTCTCG
---
> AGGAACTGGTCACGTTCTGCTATACGTAGTTCACGTGACCGCATTCAGAAAAATGCGACT
> AGTATTGTGATCAGGCATATCAGTGACTTGCGGCAGGAGAGC
6,7c6,7
< TCGTTGGACAGT--GCAAGACGCTATGCATCAAGTGCACTGGCTAGGTAAGTGCGTTTAT
< GATGAGCACAACAGGTCCGGATAGTCCCTGAACGCTATACTCCCG
---
> AGCAACTTGTCACGTTCTGCGATACGTAGTTCACGTGACCGCATTCACGCAAACACTACT
> TGTGCT--GACCATGCATATCAGGGACTTGCGACATGTGGGC
10,11c10,11
< TCGA-CCCCAAA--TTAATACGTTAGTCATCAAGTGCACTGAC---GTAATAGCGTTTAT
< GATGATGAGTACTAGCCCGTGGAAACCCTAAAAGCGTTACCCCCG
---
> AGCATGGTGTCAAGTTCTGCGTTCAGTAGTTAACCAGACGGCATTAACGCTAATACATC-
> -GTGTT--GACCTACCAACGTACGGACTTGCGTAATGTGGTC
14,15c14,15
< TCGTTGAACAGT--GCAAGACGCTATGCATCAAGTGCACTGGC---GTAAGTGCGTTTAT
< GATGAACACAACTGGTCCGTATAGTCCCTGAACGCTGTACTCCCG
---
> AGCAACTTGTCACGTTCTGCGATACGTAGTTCACGTGACCGCATTCACGCAAATACTACT
> TGTGTT--GACCAGGCATATCAGGGACTTGCGACATGAGGGC
18,19c18,19
< TCGTACCACAGT--TCAAGACGCTAGGCATCAAGTGCACTGGC---GTAATTGCGTTTAT
< GATGGACACAACTAGTCCGTTGAATCCCTGAACGCTTTACCCCCG
---
> AGCATGGTGTCAAGTTCTGCGATCCGTAGTTCACGTGACCGCATTAACGCAAATACTACC
> TGTGTT--GATCAGGCAACTTAGGGACTTGCGAAATGGGGGC

I wonder what might be wrong here - dawg or the test itself? Kind regards, Andreas.

nileshpatra commented 3 years ago

@reedacartwright could you answer this?

It also looks like tests/test0.dawg is incompatible with the current version of dawg (which outputs dawg 2-current-rUnknown) - could you please confirm this?

Additionally could you please tag a new GitHub release for 2.0? We ship dawg as a Debian package and it'd be really nice if we could have as less delta with the upstream (which is you :-))

reedacartwright commented 3 years ago

I don't believe that anyone has ever ported the test script to the 2.0 code base. 2.0 is still technically in development which is why I haven't tagged any releases. I will consider your request though.

tillea commented 2 years ago

Do you have any news? It is not about this? You talk about porting the test script to version 2.0 - but it fails for version 1.2 which is the latest tagged version.

reedacartwright commented 2 years ago

Honestly, cleaning up the tests for dawg is low on my priority list until development starts again. I'll review any patches made to improve its tests.