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inCGATOxford/cgat (press backspace or delete to remove)I have been trying to install CGAT using conda but I haven t been able. In my last attempt, I used the recommended steps
in the CGAT installation page. Here s the message that the script requested I passed ...
ghost
- 4
- Opened on Mar 5, 2019
- #400
I had CGAT installed on my personal machine running Linux Mint 18.3, and worked fine. I tried installing it on the
laboratory computer, which runs Ubuntu 16.04, but I got the following error message:
...
sandbardev
- 1
- Opened on Sep 14, 2018
- #399
Hello. I m having an issue on which I run the gtf2gtf script, the process starts but never ends and the top task manager
also showed no signs of any processes apparently derived from the script. I left ...
- 1
- Opened on Sep 3, 2018
- #398
I am trying to run bed2psl.py on a rather small BED aligment file, but it s not working. MtDNA.fa is the target
(reference) sequence in the BED alignment; chrM_pilon.fa is the query sequence.
Here s how ...
SchwarzEM
- Opened on Apr 28, 2018
- #393
I ve followed the advice in #388 in order to install a version of CGAT that contains bed2psl.py.
curl -O https://raw.githubusercontent.com/CGATOxford/cgat/master/install-CGAT-tools.sh ;
mkdir $HOME/src/cgat ...
- 25
- Opened on Apr 11, 2018
- #392
I ve just run the standard conda installation of CGAT, as helpfully spelled out on the main page documentation. The
installation generally seems to have worked, but I noticed that it does not appear to ...
- 5
- Opened on Apr 4, 2018
- #388
Hi All,
When I try running any cgat script that requires pandas I get the following error:
RuntimeError: module compiled against API version 0xb but this version of numpy is 0xa
Traceback (most recent ...
IanSudbery
- 3
- Opened on Feb 5, 2018
- #383
To reduce unnecessary dependencies, remove all scripts not in Manifest.in and their unique dependencies and separate
them into a separate repository.
AndreasHeger
- 3
- Opened on Jan 5, 2018
- #382
I ve just been testing the new installer, and after installing get the following error when I run, for example, cgat
runExpression:
Traceback (most recent call last):
File /data/mb1ims/cgat_instal_test/conda-install/envs/cgat-s/bin/cgat ...
- 9
- Opened on Jan 3, 2018
- #381
gff2fasta needs and indexed fasta file to get the sequence from. It gets this using CGAT.IndexedFasta.
CGAT.IndexedFasta will accept either a cgat or samtools index for the fasta, however, the sequence ...
- 3
- Opened on Nov 28, 2017
- #378
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