soedinglab / hh-suite

Remote protein homology detection suite.
https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-3019-7
GNU General Public License v3.0
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Trouble creating database cs219 files. #233

Open Mingchenchen opened 3 years ago

Mingchenchen commented 3 years ago

:exclamation: Make to check out our User Guide. cstranslate -A cs219.lib -D context_data.lib -x 0.3 -c 4 -f -i db_a3m -o db_cs219 -I a3m -b

I am using the above command to generate cs219 files as part of a customized database.

However it always reports error.

Expected Behavior

Current Behavior

Could not read entry: UniRef90_A0A167UI31, Message: Bad alignment: no alignment data found in stream! Processing entry: UniRef90_A0A167V4S2 Could not read entry: UniRef90_A0A167V4S2, Message: Bad alignment: no alignment data found in stream! Processing entry: UniRef90_A0A167XQ38 Could not read entry: UniRef90_A0A167XQ38, Message: Bad alignment: no alignment data found in stream! cstranslate: Problem with data file. Is the file empty or is another process reading it?: Invalid argument ffindex_index_parse failed: Invalid argument

Steps to Reproduce (for bugs)

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HH-suite Output (for bugs)

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Context

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Your Environment

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milot-mirdita commented 3 years ago

Could you upload (part of) the db_a3m.ff{data,index} database? Seems like something is wrong with it. How did you create it?