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ewels
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clusterflow
A pipelining tool to automate and standardise bioinformatics analyses on cluster environments.
https://ewels.github.io/clusterflow/
GNU General Public License v3.0
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Fixes for #124 and #125
#126
s-andrews
closed
5 years ago
5
Custom SLURM command is broken
#125
s-andrews
opened
5 years ago
0
Clusterflow doesn't work with Lmod modulefile system
#124
s-andrews
opened
5 years ago
4
Update samtools_sort_index for new sort command syntax.
#123
ewels
closed
5 years ago
1
Samtools module is outdated
#122
ewels
opened
5 years ago
0
Software installation
#121
YuntaoTan
closed
5 years ago
1
Wall time
#120
fjames003
opened
5 years ago
4
Placeholders in command strings can be repeated
#119
iansealy
closed
7 years ago
1
Posible to specify output dir ?
#118
arontommi
closed
7 years ago
5
Create salmon.cfmod.pl
#117
darogan
closed
7 years ago
6
Create fastq_salmon.config
#116
darogan
closed
7 years ago
0
Update README.md
#115
darogan
closed
7 years ago
0
Create salmon.cfmod.pl
#114
darogan
closed
7 years ago
4
Print standardised software versions
#113
ewels
closed
7 years ago
1
BWA module memory
#112
arontommi
closed
7 years ago
5
Negative complete jobs in qstat output
#111
s-andrews
opened
7 years ago
13
Use TMPDIR for picard_dedup if set in the environment
#110
jherrero
closed
7 years ago
1
Picard dedup module does not use the TMPDIR
#109
jherrero
closed
7 years ago
0
Pulling Babraham changes to main fork.
#108
ewels
closed
7 years ago
1
Providing fragment estimated for SE kallisto
#107
darogan
closed
7 years ago
3
miRNA cleanup
#106
ewels
closed
7 years ago
4
Rephrase species and assembly prompt
#105
corburn
closed
7 years ago
1
Add to bioconda
#104
ewels
opened
7 years ago
1
Changed Bismark deduplication memory requirements
#103
FelixKrueger
closed
8 years ago
1
Use less controversial colours for --qstatcols
#102
ewels
closed
7 years ago
6
Make the XML code use XML::Parser if it's available
#101
s-andrews
closed
8 years ago
1
cf --qstat is ridiculously slow when a significant number of jobs is running
#100
s-andrews
closed
8 years ago
13
Merge pull request #4 from ewels/master
#99
FelixKrueger
closed
8 years ago
0
Allow genomes.d to be used for configuration
#98
s-andrews
closed
8 years ago
2
Change config syntax?
#97
ewels
closed
8 years ago
3
Create genomes.d folder?
#96
s-andrews
closed
8 years ago
3
Fixes for the new naming of bismark files - previous version was broken
#95
s-andrews
closed
8 years ago
1
Remove preseq_plot.cfmod.py
#94
ewels
closed
7 years ago
0
Restructure dependencies
#93
s-andrews
closed
8 years ago
6
Changed hisat output filename generation to be cleaner and include ge…
#92
s-andrews
closed
8 years ago
3
Minor changes
#91
s-andrews
closed
8 years ago
1
Move the website out of the main repo
#90
ewels
closed
7 years ago
1
BI Merge
#89
ewels
closed
8 years ago
3
The great BI merge of 2016
#88
ewels
closed
8 years ago
4
Get Bismark summary module to use new bismark command
#87
ewels
closed
8 years ago
3
snpEff module
#86
darogan
closed
8 years ago
1
new kallisto module
#85
darogan
closed
8 years ago
6
Clusterflow and Nextflow
#84
machbio
closed
8 years ago
1
Passing an Environment Variable to a Cluster in Clusterflow
#83
machbio
closed
8 years ago
4
Fix for Unescaped left brace in regex
#82
machbio
closed
8 years ago
4
Cluster Flow for Perl 5.22 +
#81
machbio
closed
8 years ago
7
ChIP-seq pipeline: removing reads in blacklist regions
#80
orzechoj
closed
8 years ago
4
how to pass-through extra parameters to modules from top-level cf command?
#79
avilella
closed
8 years ago
1
Add ability to read CWL module descriptions
#78
ewels
closed
8 years ago
1
Updates for deeptools and phantompeaktools modules
#77
orzechoj
closed
8 years ago
1
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