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`dammit annotate cdna_nointrons_utrs.fa --user-databases pep.fa --busco-group eukaryota --n_threads 1`
```
# dammit
## a tool for easy de novo transcriptome annotation
by Camille Scott
**v1…
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Hi, sorry for bothering you again :)
Could you pls advise me what to check to find the problem, re-naming (adding locus tag) works well with sample data, but not with the real one...
[funannotate-…
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This is a problem with cd-hit-est and Transdecoder, but I've never encountered this error before and dammit dependencies passes so thought I should report.
- [ ] TransDecoder.Predict:MMETSP0398.tri…
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dammit seemed to run fine until it needed to run HMM. I received the following:
"
######
### Done preparing long ORFs.
######
```
Use file: Hmel.trans-0.3.fa.transdecoder_dir/longest_orfs.pep for …
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Missing blast2genomegff.py but found it in youre bitbucket https://bitbucket.org/wrf/sequences/src
Also, are you ok with wrapping the repository into a usegalaxy.org tool?
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We only have Python 3.4 on our servers at present.
Thanks,
Colin
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I wrote a script to run dammit separately for many assemblies. The script writes and runs a dammitfile for each command. Example contents of dammitfile:
```
dammit annotate /mnt/mmetsp/Micromonas_pus…
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Hi,
I'm experiencing somekind of problem when running dammit. I've check all dependencies and databases and everything seems to be allright.
I'm running the tutorial, just to check everything is fine…
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```
dammit annotate Mspi_normalized_Trinity.fasta --busco-group metazoa --n_threads 36 --database-dir ~/mnt
/dammit/ --full
--- Running annotate!
Transcriptome file: Mspi_Rcorr_trin…
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https://github.com/TransDecoder/TransDecoder/releases/tag/v3.0.0
I'm trying to figure out if the Debian package should be updated or not. Thanks.