I encountered the following error when running the xmfa2mfa.pl script provided by the lagan package. It seems that the Glue binary compiled by lagan is not working properly.
The commands that I used are as follows:
$lagan_dir/slagan.pl seq1.fa seq2.fa -out test.xmfa # this one works fine
$lagan_dir/xmfa2mfa.pl 1 < test.xmfa >test.mfa # this one triggered the error
Alternatively, you can also run the slagan-mfa.pl wrapper provided by the lagan package to replicate the same error:
$lagan_dir/slagan-mfa.pl seq1.fa seq2.fa
I further attach the two sequences that I want to align for this example. You can gunzip them to run the test.
Hi @arendsee ,
I encountered the following error when running the xmfa2mfa.pl script provided by the lagan package. It seems that the Glue binary compiled by lagan is not working properly.
sh: line 1: 80101 Segmentation fault (core dumped) /home/jxyue/Programs/lagan/utils/Glue tmp.xmfa > glue.out 2> glue.err
The commands that I used are as follows: $lagan_dir/slagan.pl seq1.fa seq2.fa -out test.xmfa # this one works fine $lagan_dir/xmfa2mfa.pl 1 < test.xmfa >test.mfa # this one triggered the error
Alternatively, you can also run the slagan-mfa.pl wrapper provided by the lagan package to replicate the same error: $lagan_dir/slagan-mfa.pl seq1.fa seq2.fa
I further attach the two sequences that I want to align for this example. You can gunzip them to run the test.
Thanks in advance!
Best, Jia-Xing
seq1.fa.gz seq2.fa.gz