User: salamayg

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salamayg20
Reputation:
20
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New User
Location:
Canada
Last seen:
2 years, 6 months ago
Joined:
2 years, 6 months ago
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Posts by salamayg

<prev • 6 results • page 1 of 1 • next >
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Comment: C: Gnu Parallel - Parallelize Serial Command Line Programs Without Changing Them
... What options are available if you want to utilize other machines but they require a password for ssh? Is there a way to force using rsh? ...
written 2.5 years ago by salamayg20
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Comment: C: Gnu Parallel - Parallelize Serial Command Line Programs Without Changing Them
... Is it possible to make parallel use rsh in the case where ssh requires a password? ...
written 2.5 years ago by salamayg20
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Comment: C: GNU Parallel Block Issues
... Okay thank you very much. ...
written 2.5 years ago by salamayg20
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Comment: C: GNU Parallel Block Issues
... Sure. I hope this is an appropriate download: http://ge.tt/6d3f9g62/v/0?c?c I also tried parallel and piping to cat on a different fasta file with more simple headers (to see if there was an issue in the header of the original file) but it would still do the same thing.   Also, the exact command ...
written 2.5 years ago by salamayg20
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Comment: C: GNU Parallel Block Issues
... Yes, when I do that it is missing sequences. If I wc the original input and the parallel output, it goes from 10000 to 9588. In the parallel output, the first line starts as:   >CTTCACTAGCT >r9 sequence   whereas in the original file, it started as: >r1 sequence >r2 sequence e ...
written 2.5 years ago by salamayg20
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GNU Parallel Block Issues
... Hello, I am using GNU parallel to speed up my BLAST jobs. I have seen the example outlined in the following post (https://www.biostars.org/p/63816/) and used the command:   cat 1gb.fasta | parallel --block 100k --recstart '>' --pipe blastp -evalue 0.01 -db db.fa -query - > results   I am ...
gnu parallel parallel block blast written 2.5 years ago by salamayg20 • updated 2.5 years ago by ole.tange2.7k

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