User: Darrill

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Darrill0
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Posts by Darrill

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output path issue on Busco (python)
... Hi everyone, I'm actually running a busco.py program to find orthologous genes present in all insects in my genomes. To do so I created a bash file to run it on the cluster. Here is the file: #!/bin/bash #SBATCH -t 24:00:00 #SBATCH -e path/busco_job.log/busco_job.error ...
python path busco written 11 hours ago by Darrill0 • updated 50 minutes ago by h.mon22k
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Comment: C: Recover fasta sequences in database from the blast output 6
... with strand minus there is the same error. ...
written 5 days ago by Darrill0
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Comment: C: Recover fasta sequences in database from the blast output 6
... yes the >> method works thank you very much for your help. Now there is juste the start and end size issue When start is higher than end it says: BLAST engine error: Failed to parse sequence range (start cannot be larger than stop) When I do: blastdbcmd -db path/db_lh/makedb_lh2 - ...
written 5 days ago by Darrill0
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Comment: C: Recover fasta sequences in database from the blast output 6
... Yes it was the issue thank you it works now. Just one last thing, because I creat several commande lines such as: blastdbcmd -db path/makedb_lh2 -entry IDBA_scaffold_19039 -range 1083-1628 -out file.fst blastdbcmd -db /path/makedb_lh2 -entry IDBA_scaffold_19039 -range 712-975 -out file.fs ...
written 5 days ago by Darrill0
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Comment: C: Recover fasta sequences in database from the blast output 6
... And yet I checked and it does exist : >IDBA_scaffold_91814 CGACAAAAACCTTATCCTGCATCT..... I'v yet put in `-db` the makeblasdb format with the .nhr, .nin and .nsq format I used to make the blast. ...
written 5 days ago by Darrill0
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Comment: C: Recover fasta sequences in database from the blast output 6
... Ok it works now but in cases where the start is larger than stop I guet a message error event if I use the `-strand` plus option And when the start is lower than stop I guet: blastdbcmd -db path/db_lh/makedb_lh -entry IDBA_scaffold_91814 -range 141-500 -outfmt %f the message: Error: I ...
written 5 days ago by Darrill0

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