User: marija.djurdjevic

Reputation:
30
Status:
New User
Location:
Last seen:
1 month ago
Joined:
4 months, 3 weeks ago
Email:
m****************@klinikum-graz.at

Posts by marija.djurdjevic

<prev • 6 results • page 1 of 1 • next >
0
votes
1
answer
170
views
1
answers
Comment: C: IOError: [Errno 2] No such file or directory: '/galaxy-repl/main/scratch2/tmppqO
... Dear Jenn, Can you please be so kind to share your solution? I have the same issue on my galaxy cluster and it's very annoying. I have no idea how to solve it! We tried to add "-noac" param to NFS (performance was terrible), increase "retry_job_output_collection" in galaxy.ini, but nothing helped. ...
written 7 weeks ago by marija.djurdjevic30
0
votes
1
answer
108
views
1
answer
Extract assembled transcripts from Cufflinks gtf without to use reference genome
... Hi all, I know there were similar questions, but unfortunately I couldn't find proper answer for my problem. I am doing de novo transcriptome assembling of unknown fish. I used Trinity for that purpose and I acceptable assemblies. I also did genome-guided assembling with STAR->Cufflinks using c ...
bam samtools cufflinks gtf rna-seq written 11 weeks ago by marija.djurdjevic30 • updated 11 weeks ago by Jennifer Hillman Jackson23k
0
votes
2
answers
244
views
2
answers
Comment: C: install dependencies over conda
... Those are settings from galaxy.ini: conda_prefix = /home/data/galaxy_tool_dep/_conda/ conda_exec = /home/data/galaxy_tool_dep/_conda/bin/conda conda_debug = True conda_ensure_channels = iuc,bioconda,r,defaults,conda-forge conda_auto_install = True conda_auto_init = True ...
written 4 months ago by marija.djurdjevic30
0
votes
2
answers
244
views
2
answers
Answer: A: install dependencies over conda
... Dear Jen, Thanks for your response. I have the latest version of Galaxy and HISAT was just an example. I have the same issue installing other tool dependencies and even running tools which have conda dependencies. I also went through a lot of posts everywhere, but unfortunately I couldn't solve m ...
written 4 months ago by marija.djurdjevic30
5
votes
2
answers
244
views
5 follow
2
answers
install dependencies over conda
... Hi, I have issue installing tool dependencies over conda (over Manage Tool Dependencies in Admin panel): Traceback (most recent call last): File "/home/data/galaxy_tool_dep/_conda/bin/conda", line 6, in sys.exit(conda.cli.main()) File "/home/galaxy/galaxy/.venv/local/lib/python2. ...
conda galaxy tool dependencies certs python written 4 months ago by marija.djurdjevic30
1
vote
2
answers
231
views
2
answers
Answer: A: Upgrade Galaxy to new release
... Hi all, I have similar problem with galaxy upgrade. I tried to do `git checkout release_17.05 && git pull --ff-only origin release_17.05.` but since I have changes in some files I got error message: Already on 'release_17.05' From https://github.com/galaxyproject/galaxy * bran ...
written 4 months ago by marija.djurdjevic30

Latest awards to marija.djurdjevic

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 131 users visited in the last hour