ikeller
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ae114dd142
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edit max_time
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2021-05-20 13:52:13 +02:00 |
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ikeller
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5a0ecbd81d
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edit max_time
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2021-05-20 13:48:59 +02:00 |
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ikeller
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6def686ab5
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edit config
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2021-05-20 13:44:59 +02:00 |
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ikeller
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0e3898eabf
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modify singularity settings
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2021-05-20 10:53:35 +02:00 |
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ikeller
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af1e57027d
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edit config and readme
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2021-05-19 09:46:07 +02:00 |
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ikeller
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fb3cede5d3
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add config file
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2021-05-19 08:41:55 +02:00 |
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James A. Fellows Yates
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f2413553a3
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Merge pull request #240 from jfy133/shh
eager@SHH Add additional retry allowance for silly big data in markdups
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2021-05-05 10:52:58 +02:00 |
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James A. Fellows Yates
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a849fe991c
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Add additional retry allowance for silly big data in markdups
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2021-05-04 21:43:19 +02:00 |
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Maxime U. Garcia
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77bd7f567f
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Merge pull request #228 from asafpr/master
updated jax resources
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2021-05-02 14:47:19 +02:00 |
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Alexander Peltzer
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c12c373969
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Merge pull request #235 from aunderwo/cambridge
Add Cambridge University HPC config
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2021-04-25 10:40:56 +02:00 |
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Gisela Gabernet
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4e9e5d2c67
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Merge branch 'master' into cfc_sarek
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2021-04-23 16:47:04 +02:00 |
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Anthony Underwood
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8b3951b244
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Create cambridge.config
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2021-04-22 16:00:37 +01:00 |
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Anthony Underwood
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351c5773f0
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Add queue limits for 'normal'
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2021-04-22 11:59:34 +01:00 |
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Anthony Underwood
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7d8770af1a
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Create sanger.config
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2021-04-21 16:39:55 +01:00 |
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phue
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b225a0555a
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biohpc_gen: update software tree path
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2021-04-21 10:08:00 +02:00 |
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James A. Fellows Yates
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b9a00f7926
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Update mpcdf.config
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2021-04-15 22:27:07 +02:00 |
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Harshil Patel
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7ac66dcd72
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Update crick.config
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2021-04-13 17:07:02 +01:00 |
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Combiz Khozoie
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c571c05ab9
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Merge pull request #219 from slacalle/patch-2
Imperial College | Remove "/rdsgpfs"
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2021-04-13 15:28:00 +01:00 |
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Asaf Peer
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a0c8a9ec8f
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updated jax resources
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2021-04-12 16:00:34 -04:00 |
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Phil Ewels
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2f77d16b70
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Merge pull request #220 from ewels/master
UPPMAX: Avoid undefined parameter warnings
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2021-04-08 15:06:00 +02:00 |
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James A. Fellows Yates
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161c3a33d4
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Merge branch 'master' into eva
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2021-04-07 19:28:16 +02:00 |
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James A. Fellows Yates
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ce465cca57
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Apply suggestions from code review
Co-authored-by: Alexander Peltzer <apeltzer@users.noreply.github.com>
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2021-04-07 19:27:24 +02:00 |
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Alexander Peltzer
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91f50aad4e
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Merge pull request #221 from phue/biohpc_gen
Add BioHPC Genomics config
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2021-04-07 14:03:22 +02:00 |
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ameynert
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0ab9edde72
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Delete conf/pipeline/atacseq directory
Pipeline-specific config not supported yet by ATAC-seq pipeline
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2021-04-07 09:24:30 +01:00 |
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James A. Fellows Yates
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832edaa450
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Merge branch 'master' into eva
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2021-04-06 17:51:46 +02:00 |
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James Fellows Yates
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be1d35840d
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Add EVA and EAGER@EVA
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2021-04-06 17:48:16 +02:00 |
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James Fellows Yates
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d69af0f287
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Merging
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2021-04-06 16:42:22 +02:00 |
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phue
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60ae267e43
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use SLURM_CLUSTERS env var
this seems to be more reliable for queue checking than using the clusterOptions directive. See https://github.com/nextflow-io/nextflow/issues/807
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2021-04-06 11:35:01 +02:00 |
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ameynert
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6e201a71f4
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ATAC-seq pipeline config
Java processes with overhead memory requirements
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2021-03-30 16:31:00 +01:00 |
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ameynert
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e5f2a63079
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Java overhead processes list updated
Added all processes calling GATK for Mutect2 variant calling
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2021-03-30 16:21:53 +01:00 |
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ameynert
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adfb5366b9
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Java overhead process list updated
Added HaplotypeCaller and GenotypeGVCFs to set of processes that need Java overhead
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2021-03-30 16:15:17 +01:00 |
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phue
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8fc60e2e70
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add config for biohpc_gen
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2021-03-29 19:25:58 +02:00 |
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Gisela Gabernet
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71a97ba316
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Merge pull request #185 from ggabernet/master
awsbatch config update
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2021-03-28 20:59:40 +02:00 |
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Phil Ewels
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d34bc40841
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UPPMAX: add to schema_ignore_params
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2021-03-26 15:22:57 +01:00 |
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Phil Ewels
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eccc9ea8d5
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Define params.project and params.clusterOptions in uppmax config
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2021-03-26 15:20:32 +01:00 |
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Santiago Lacalle
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e2c583d558
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Remove "/rdsgpfs"
"/rdsgpfs" symlink will not be present on all nodes. Without that mount the container creation will fail.
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2021-03-25 12:38:15 +00:00 |
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Alexander Peltzer
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26b5904df1
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Merge pull request #218 from asafpr/master
added jax singularity cache dir
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2021-03-24 17:39:03 +01:00 |
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Asaf Peer
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922ab87eb0
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added jax singularity cache dir
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2021-03-24 11:25:47 -04:00 |
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Phil Ewels
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bfab371c94
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Merge branch 'master' into master
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2021-03-24 12:36:15 +01:00 |
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ameyner2
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da8cf2f207
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Added pipeline-specific config files for rnaseq and sarek
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2021-03-24 10:46:26 +00:00 |
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Asaf Peer
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9b2d5bfead
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Merge pull request #216 from asafpr/master
Added JAX conf
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2021-03-24 03:31:14 -04:00 |
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Alexander Peltzer
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5988c51361
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Merge pull request #211 from DoaneAS/master
Adding WCM.config for Weill Cornell Medicine cluster
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2021-03-23 14:58:27 +01:00 |
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Edmund Miller
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a6975cdd4e
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fix(ganymede): large => high
Co-authored-by: drpatelh <drpatelh@users.noreply.github.com>
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2021-03-22 12:42:56 -05:00 |
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Edmund Miller
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34ccce9531
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fix(ganymede): Add process resources
Trimgalore though it can be a bottom neck, doesn't require the 1 big
memory node we have and can be run on the genomics queue.
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2021-03-21 21:47:59 -05:00 |
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Edmund Miller
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4570718b12
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fix(ganymede): Add TMPDIR and SINGULARITY_CACHEDIR env variables
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2021-03-21 21:45:39 -05:00 |
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Asaf Peer
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30c864e112
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added JAX conf
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2021-03-21 06:49:11 -04:00 |
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ameyner2
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059d353a1e
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Removed Conda, added automount Singularity
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2021-03-18 12:31:56 +00:00 |
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Rike
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6221b67bcf
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Give Strelka a complete compute node
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2021-03-18 11:11:02 +01:00 |
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Rike
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b1846af9d3
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reduce mapping resource further to compute node
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2021-03-18 11:10:00 +01:00 |
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FriederikeHanssen
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67c93a4743
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Update conf/pipeline/sarek/cfc.config
Co-authored-by: Gisela Gabernet <gisela.gabernet@gmail.com>
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2021-03-18 11:06:38 +01:00 |
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