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marbl / MetaCompass

MetaCompass: Reference-guided Assembly of Metagenomes
https://github.com/marbl/MetaCompass/wiki
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Could not open reference sequences file /refseq/markers/genome2markers.length #24

Open zhan4429 opened 2 years ago

zhan4429 commented 2 years ago

I ran the example go_metacompass.py -1 SRS044742/SRS044742.denovo_duplicates_marked.trimmed.1.fastq -2 SRS044742/SRS044742.denovo_duplicates_marked.trimmed.2.fastq -U SRS044742/SRS044742.denovo_duplicates_marked.trimmed.singleton.fastq -l 100 -o example_output -k

It failed in the reference_selection step. When I checked the log, I found this Could not open reference sequences file /refseq/markers/genome2markers.length. When I checked my markers folder under the refseq folder, I cannot find this genome2markers.length. Did I download the wrong refseq database? I followed the install.sh.

How should I fix this issue?

Thanks!

akiledal commented 2 years ago

I'm also running into this issue when attempting to run the second example. The genome2markers.length file is also not present in the old refseq database. @vcepeda