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Hi, I am trying to get Juicer running on our uni HPC cluster and failing so far.
I find it hard to find the locations that should be modified or commented out when not a member of the Aiden lab (ie u…
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## Description
Let's make this first so we can get authorization implemented early also!
## Requirements
It is done when
1. the user model has all the appropriate fields for a basic user.…
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**Are you sure this is a bug?**
If unsure, please post your question/situation to the forum first: aidenlab.org/forum.html
**Describe the bug**
Hello,
I used the code below to dump observed KR…
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I'm stuck in this for days now.
In SLURM version, we have added "-S dedup" in the juicer script, there were merged_sort.txt" generated and I see a lot of "splitXXXX" in the aligned folder, and a seri…
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Hi Team,
Could you please clarify why (and when) have you decided to change the default branch from master to encode?
Does the master contain any concerning bugs or issues?
I noticed that the wiki …
Zojka updated
2 years ago
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Juicer server is spawning process using `subprocess.Popen`, but it is not handling children exit status.
Some suggestions:
- Investigate how to use os.wait()
- Add a signal handler
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For some reason when I run juicer I don't get any output for arrowhead. I do, however, get a good .hic file that I can visualize in juicebox. When I run arrowhead separately using juicer tools I get v…
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We use PBS profession as cluster scheduling software. It’s not listed the list of “resource management software”. I have seen in other issues that you used to have a script for PBS but due to actuali…
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The collisions.awk would not work if my reference genome have contig names not like "chr1" "chr2". For now I just modify the awk scripts by removing the name check.
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Hi,
I have the following directory structure:
references:
total 8374528
-rwxr-xr-x+ 1 sm2556 mane 3157608038 Sep 13 12:32 Homo_sapiens_assembly19.fasta
-rw-r--r--+ 1 sm255…