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blast database can probably be build with docker #5

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antonkulaga opened this issue Sep 3, 2020 · 1 comment
Open

blast database can probably be build with docker #5

antonkulaga opened this issue Sep 3, 2020 · 1 comment
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enhancement New feature or request

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@antonkulaga
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You have:

# if you do not habe BLAST+ installed run:
$ sudo apt-get install ncbi-blast+
	
# go to the place where Uniref fasta file is being stored (change the path bellow accordingly):
$ cd /Place/where/UnirefX.fasta/file/is/stored
	
# create database (this might take a while from several minutes to one hour)
$ makeblastdb -dbtype prot -in uniref50.fasta

There is an official docker for ncbi-blast, maybe you can just do it with it. Can be either docker command or cwl-task

@eliza-m eliza-m added the enhancement New feature or request label Sep 3, 2020
@eliza-m
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eliza-m commented Sep 3, 2020

We could add this and also options for updating the databases (uniref updates every 3 months). Also, I still need to check whether the predictors behaviour is consistent with different versions of protein databases...

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