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Snakemake-Profiles
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slurm
Cookiecutter for snakemake slurm profile
MIT License
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Append top level job name to rule-based job name
#118
CJREID
closed
2 months ago
2
Compatibility with snakemake version 8.0 and higher
#117
TBradley27
opened
9 months ago
11
Specify only one output file
#116
robinfallegger
opened
10 months ago
0
Fix sidecar index out of range issues
#115
mbhall88
closed
1 year ago
3
Update test architecture
#114
percyfal
closed
1 year ago
0
Error spam (list index out of range, could not query sidecar)
#113
nienkevanunen
closed
1 year ago
4
How do I make mem_mb_per_cpu work?
#112
hepcat72
opened
1 year ago
8
slurm-status.py: could not query side car
#111
mhorlacher
opened
1 year ago
0
Snakemake and Slurm
#110
mweberr
opened
1 year ago
1
Jobs submitted to cluster fail without explanation
#109
jonahcullen
opened
1 year ago
9
pick the larger settting for resource
#108
y9c
opened
1 year ago
0
`mem` setting in resource is not working due to default `mem_mb` argument is generated in latest version of snakemake
#107
y9c
opened
1 year ago
3
Add compatibility for --immediate-submit flag
#106
GaspardR
opened
1 year ago
0
update default cluster logpath
#105
mbhall88
closed
1 year ago
0
slurm fails when log path contains a Wildcards string that is a directory
#104
maarten-k
closed
1 year ago
8
How to use with MPI jobs?
#103
bilke
opened
2 years ago
1
Profile not working well on AWS ParallelCluster with Slurm
#102
cbrueffer
opened
2 years ago
0
use explicit username instead of --me
#101
esrice
closed
1 year ago
3
Allow settings to come from environment
#100
holtgrewe
closed
2 years ago
1
Sidecar shuts down too early when pressing Ctrl-C
#99
holtgrewe
opened
2 years ago
1
Suppressing HTTP log requests
#98
holtgrewe
closed
2 years ago
0
Provided cores differ to what's passed in the CLI
#97
vinisalazar
opened
2 years ago
1
sidecar crashes when parsing malformed response
#96
messersc
closed
2 years ago
7
Improved ergonomics and control
#95
mbhall88
closed
2 years ago
5
SLURM --tasks-per-node, --cpus-per-task, etc.
#94
whophil
opened
2 years ago
2
Deprecate advanced args
#93
percyfal
closed
2 years ago
0
Slurm sidecar ci update
#92
percyfal
closed
2 years ago
0
Deprecate advanced argument conversion
#91
percyfal
closed
2 years ago
0
How to specify --output= Slurm parameter?
#90
holtgrewe
closed
2 years ago
2
Problems with Snakemake 5.6.0 standard resources
#89
holtgrewe
opened
2 years ago
4
Is config.yaml considered the new cluster_config?
#88
ftabaro
closed
2 years ago
2
Fails with many input files
#87
alanocallaghan
closed
2 years ago
7
Specifying GRES (gpu, local storage) and constraints
#86
holtgrewe
closed
2 years ago
1
Adding support for Snakemake v7 --slurm-sidecar
#85
holtgrewe
closed
2 years ago
11
Update documentation on cluster-config and resources.
#84
percyfal
closed
2 years ago
0
Test resources partition key
#83
percyfal
closed
2 years ago
0
Update runners
#82
percyfal
closed
2 years ago
0
cluster-status should use squeue --iterate
#81
holtgrewe
closed
2 years ago
3
add more option on config.yaml
#80
sravel
closed
2 years ago
2
slurm_utils.py submit_job function is very slow
#79
atermanini
opened
2 years ago
13
Add "partition" to resource mapping
#78
tdido
closed
2 years ago
3
Why the resources are not taken from the slurm configuration?
#77
ekushele
closed
2 years ago
5
Getting "/bin/sh: slurm-status.py: command not found" error
#76
anilthanki
closed
2 years ago
3
using conda with config without global snakemake install
#75
LZeitler
closed
3 years ago
4
sacct running continuously
#74
rmvpaeme
closed
2 years ago
3
A simple alternative profile with a single config file
#73
jdblischak
closed
2 years ago
6
Set status of suspended jobs to running
#72
percyfal
closed
3 years ago
0
Suspend should be considered running.
#71
cErikson
closed
3 years ago
0
Parse sinfo
#70
percyfal
closed
3 years ago
0
Cookiecutter config
#69
percyfal
closed
3 years ago
5
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