User: dtejadamartinez
dtejadamartinez • 10
- Reputation:
- 10
- Status:
- New User
- Location:
- Last seen:
- 7 hours ago
- Joined:
- 4 months, 4 weeks ago
- Email:
- d**************@gmail.com
Posts by dtejadamartinez
<prev
• 8 results •
page 1 of 1 •
next >
0
votes
1
answer
90
views
1
answers
... edited to add
The cluster use Sun Grid Engine, I'm still trying to run the data, including the Toy example, but this error always comes up:
Reading GO file...
Segmentation fault (core dumped)
Regards, ...
written 9 days ago by
dtejadamartinez • 10
0
votes
1
answer
90
views
1
answers
... edited to add
There is a moment where conversions seem ready but the file says: conversion.running
before that I run again OMA and I get the next error and the run die all.
line 18: ulimit: stack size: cannot modify limit: Operation not permitted
only_run_dbconv := true
Starting ...
written 10 days ago by
dtejadamartinez • 10
• updated
10 days ago by
genomax ♦ 46k
0
votes
1
answer
90
views
1
answer
... Hi,
Trying to run OMA on 2 different cluster. In one cluster, it ran up to 32%, in another one it is cut at the beginning and the conversions are not finished.
But I get the same following error in both cases:
1523613044.955060 - 1 - [pid 22699]: Computing Orcinus_orca vs Bos_taurus (Part 95 ...
written 11 days ago by
dtejadamartinez • 10
• updated
1 day ago by
adrian.altenhoff • 380
0
votes
1
answer
73
views
1
answer
... Hello,
I download 30 coding sequences genomes of different species from Ensembl or NCBI. In order to eliminate the transcripts and isoforms I used cd-hitest first and then I passed the files through TRANSDECODER.
In TRANSDECODER v.5.0.2 I did step 1 and 3, but the final file **fasta.transdecoder ...
written 5 weeks ago by
dtejadamartinez • 10
• updated
5 weeks ago by
lieven.sterck • 1.2k
0
votes
2
answers
93
views
2
answers
Answer:
A: start OMA run - file.log
... Hi, thanks for the answer.
I have all the sequences in nucleotides, and in the input I have InputDataType := 'DNA'; That's why I find it strange.
It only happens with the final files thrown by TRANSDECODER.
Cheers,
Daniela ...
written 5 weeks ago by
dtejadamartinez • 10
0
votes
2
answers
93
views
2
answers
... Hi,
I have a question about the file.log when OMA start to convert the files.
I download 30 coding genomes of different species from Ensembl or NCBI.
In order to eliminate the transcripts and isoforms I used cd-hitest first and then I passed the files through TRANSDECODER.
When I start running ...
written 5 weeks ago by
dtejadamartinez • 10
0
votes
1
answer
249
views
1
answers
Comment:
A: OMA - without all vs all
... Thanks for your help,
I think I would compute all vs all then. ...
written 4 months ago by
dtejadamartinez • 10
1
vote
1
answer
249
views
1
answer
... I have a data set of 700 coding sequences (which I saved in a reference.fa file) and I need to obtain the orthology relationships (orthologous and paralogous) of these genes against 70 species. I have downloaded the genome cds from NCBI for each species. Now, is it possible to get only these compari ...
written 4 months ago by
dtejadamartinez • 10
Latest awards to dtejadamartinez
No awards yet. Soon to come :-)
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 958 users visited in the last hour