idanefroni
commented
1 year ago Very well, thank you!
The genome directory is still uploading. I'll send you the link once it's done.
On 27/10/2022 16:03:33, Eduardo Gonzalez Grandio @.> wrote: Hello, I am trying to run the processGenomes script but I get the following error: "Conservatory directory structure at (...) is corrupt" where (...) is the directory where I have cloned Conservatory. Looking at processGenomes code (line 62): die "ERROR: Conservatory directory structure at ($conservatoryDir) is corrupt\n" unless (-e "$conservatoryDir/genomes" && -e "$conservatoryDir/genomes/blastdb/" && -e "$conservatoryDir/scripts" && -e "$conservatoryDir/alignments"); In the repository, the blastdb directory does not exist. I just created it manually and I could run processGenomes. I would suggest to either include the directory in the repository or making the error message more explicit. — Reply to this email directly, view it on GitHub [https://github.com/idanefroni/Conservatory/issues/3], or unsubscribe [https://github.com/notifications/unsubscribe-auth/AK6XGGEMKQI5OFMOT5QDHHLWFJ4SJANCNFSM6AAAAAARQBHFLE]. You are receiving this because you are subscribed to this thread.Message ID: @.>
Hello,
I am trying to run the processGenomes script but I get the following error:
"Conservatory directory structure at (...) is corrupt" where (...) is the directory where I have cloned Conservatory.
Looking at processGenomes code (line 62):
die "ERROR: Conservatory directory structure at ($conservatoryDir) is corrupt\n" unless (-e "$conservatoryDir/genomes" && -e "$conservatoryDir/genomes/blastdb/" && -e "$conservatoryDir/scripts" && -e "$conservatoryDir/alignments");
In the repository, the blastdb directory does not exist. I just created it manually and I could run processGenomes.
I would suggest to either include the directory in the repository or making the error message more explicit.