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Trying to reproduce the issue described at https://groups.google.com/forum/#!topic/sequenceserver/PGAPMssi5I4, I ran into another one.
```
ArgumentError - invalid byte sequence in UTF-8:
/Users/pri…
yeban updated
6 years ago
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## Problem Description
An error mid-way through running shmlast on HPC.
## My Environment
[GCC 4.4.7 20120313 (Red Hat 4.4.7-1)] on linux
### Python Environment
Python 3.5.2 |Anaconda custom…
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Hi,
I was trying to gene ontology enrichment using Trinotate and Trinity. I got go_annotation.txt file without having any problem. After that I ran this script,
/Programs/trinityrnaseq-Trinity-v2.…
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Hi,
I have the following error:
```
CMD: perl /mnt/apps/rnammer/rnammer -S euk -m tsu,lsu,ssu -gff tmp.superscaff.rnammer.gff < transcriptSuperScaffold.fasta
CMD: /mnt/apps/miniconda2/envs/smsk_tr…
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I was trying to use the above tool as follows
scripts/polyCistronAnalyzer.pl -P pasa_assembly.fasta -T trinity_assembled_transcripts.fasta -M mydb_pasa:sm5 -p pasa_all:pasa_password
First error I go…
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Hi
I did `snakemake -j 40 --rerun-incomplete --latency-wait 10000` but I got the following Error:
```
Done. See output file: assembly.fasta.rnammer.gff
Waiting at most 10000 seconds for missi…
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Hi.
Is there Picard CollectRnaSeqMetrics-like tools for trinity to get RNA degrade graph?
Picard CollectRnaSeqMetrics need reference genome.
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Hi Brian,
I've encountered a potential problem. Let me explain what I've done/doing.
1) run PASA alignment using Trinity genome-guided transcripts
```
Launch_PASA_pipeline.pl -c alignAssembly…
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### Indicate troubleshooting steps taken
- [ ] Ran `brew update` and retried your prior step?
Yes, same error.
- [ ] Ran `brew doctor`, fixed as many issues as possible and retried your prior step?
…
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Dear Jon,
I looked thoroughly at my previous funannotate results (derived a month ago) and found that **funannotate-p2g.py** seems to fail. As a result, finally, out of 500,000 proteins, tblastn ha…