Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

--split_fastq option is not working #71

Closed
nservant opened this issue Aug 6, 2020 · 2 comments
Closed

--split_fastq option is not working #71

nservant opened this issue Aug 6, 2020 · 2 comments

Comments

@nservant
Copy link
Collaborator

nservant commented Aug 6, 2020 

if ( params.split_fastq ){                                                                                                                                                                                   
   raw_reads_full = raw_reads.concat( raw_reads_2 )                                                                                                                                                          
   raw_reads = raw_reads_full.splitFastq( by: params.splitFastq , file: true)                                                                                                                                
 }else{                                                                                                                                                                                                      
   raw_reads = raw_reads.concat( raw_reads_2 ).dump(tag: "data")                                                                                                                                             
}
@nservant
Copy link
Collaborator Author

nservant commented Sep 3, 2020

fixed in v1.2.2

@nservant nservant closed this as completed Sep 3, 2020
@Krithika-Bhuvan
Copy link

Krithika-Bhuvan commented Apr 30, 2024 •
edited
Loading

Hello ! Reopening this . I'm using nf-core/hic v2.1.0-gfe4ac65 on our HPC and when i use this setting , the pipeline does not proceed to the fastqc step. No errors or anything. Just silent.
In addition to saying "split-fastq: true" in my YAML file, should i be adding any more parameters ?

[+] Loading java 17.0.3.1  ... 
[+] Loading singularity  4.0.1  on cn0847 
[+] Loading nextflow  23.10.0 
�[33mNextflow 23.10.1 is available - Please consider updating your version to it�(B�[m
N E X T F L O W  ~  version 23.10.0
Launching `https://github.com/nf-core/hic` [nice_perlman] DSL2 - revision: fe4ac65631 [master]


------------------------------------------------------
                                        ,--./,-.
        ___     __   __   __   ___     /,-._.--~'
  |\ | |__  __ /  ` /  \ |__) |__         }  {
  | \| |       \__, \__/ |  \ |___     \`-._,-`-,
                                        `._,._,'
  nf-core/hic v2.1.0-gfe4ac65
------------------------------------------------------
Core Nextflow options
  revision                     : master
  runName                      : nice_perlman
  containerEngine              : singularity
  launchDir                    : /vf/users/03_nextflow_hic
  workDir                      : /vf/users/03_nextflow_hic/work
  projectDir                   : /home/user1/.nextflow/23.10.0/assets/nf-core/hic
  userName                     : user1
  profile                      : biowulf
  configFiles                  : /home/user1/.nextflow/23.10.0/assets/nf-core/hic/nextflow.config, /vf/users/03_nextflow_hic/nextflow.config, /vf/users/03_nextflow_hic/nextflow.config

Input/output options
  input                        : /data/03_nextflow_hic/sample1.csv
  outdir                       : ./TDMSO_trim/

Reference genome options
  genome                       : GRCh38
  fasta                        : /fdb/igenomes//Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa
  igenomes_base                : /fdb/igenomes_nf/
  bwt2_index                   : /fdb/igenomes//Homo_sapiens/NCBI/GRCh38/Sequence/Bowtie2Index/

Digestion Hi-C
  digestion                    : arima

DNAse Hi-C
  min_cis_dist                 : 0

Alignments
  bwt2_opts_end2end            : --very-sensitive -L 30 --score-min L,-0.6,-0.2 --end-to-end --reorder
  bwt2_opts_trimmed            : --very-sensitive -L 20 --score-min L,-0.6,-0.2 --end-to-end --reorder

Valid Pairs Detection
  max_insert_size              : 0
  min_insert_size              : 0
  max_restriction_fragment_size: 0
  min_restriction_fragment_size: 0
  save_interaction_bam         : true

Contact maps
  bin_size                     : 1000000
  hicpro_maps                  : true
  ice_filter_high_count_perc   : 0
  res_zoomify                  : null

Downstream Analysis
  res_dist_decay               : 250000
  tads_caller                  : insulation
  res_tads                     : 40000

Institutional config options
  config_profile_description   : Biowulf nf-core config
  config_profile_contact       : staff@hpc.nih.gov
  config_profile_url           : https://hpc.nih.gov/apps/nextflow.html

Max job request options
  max_cpus                     : 32
  max_memory                   : 400 GB
  max_time                     : 240 h

!! Only displaying parameters that differ from the pipeline defaults !!
------------------------------------------------------
If you use nf-core/hic for your analysis please cite:

* The pipeline
  https://doi.org/10.5281/zenodo.2669513

* The nf-core framework
  https://doi.org/10.1038/s41587-020-0439-x

* Software dependencies
  https://github.com/nf-core/hic/blob/master/CITATIONS.md
------------------------------------------------------

WARN: Found unexpected parameters:
* --clusterOptions: null
- Ignore this warning: params.schema_ignore_params = "clusterOptions" 

[-        ] process > NFCORE_HIC:HIC:INPUT_CHECK:... -

[-        ] process > NFCORE_HIC:HIC:INPUT_CHECK:... -
[-        ] process > NFCORE_HIC:HIC:PREPARE_GENO... -
[-        ] process > NFCORE_HIC:HIC:PREPARE_GENO... -
[-        ] process > NFCORE_HIC:HIC:FASTQC          -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -

[-        ] process > NFCORE_HIC:HIC:INPUT_CHECK:... -
[-        ] process > NFCORE_HIC:HIC:PREPARE_GENO... -
[-        ] process > NFCORE_HIC:HIC:PREPARE_GENO... -
[-        ] process > NFCORE_HIC:HIC:FASTQC          -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:GET_V... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:BUILD... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:ICE_N... -

[-        ] process > NFCORE_HIC:HIC:INPUT_CHECK:... -
[-        ] process > NFCORE_HIC:HIC:PREPARE_GENO... -
[-        ] process > NFCORE_HIC:HIC:PREPARE_GENO... -
[-        ] process > NFCORE_HIC:HIC:FASTQC          -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:GET_V... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:BUILD... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:ICE_N... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:SPLIT... -
[-        ] process > NFCORE_HIC:HIC:HIC_PLOT_DIS... -
[-        ] process > NFCORE_HIC:HIC:COMPARTMENTS... -

[-        ] process > NFCORE_HIC:HIC:INPUT_CHECK:... -
[-        ] process > NFCORE_HIC:HIC:PREPARE_GENO... -
[-        ] process > NFCORE_HIC:HIC:PREPARE_GENO... -
[-        ] process > NFCORE_HIC:HIC:FASTQC          -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:GET_V... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:BUILD... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:ICE_N... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:SPLIT... -
[-        ] process > NFCORE_HIC:HIC:HIC_PLOT_DIS... -
[-        ] process > NFCORE_HIC:HIC:COMPARTMENTS... -
[-        ] process > NFCORE_HIC:HIC:TADS:COOLTOO... -
[-        ] process > NFCORE_HIC:HIC:CUSTOM_DUMPS... -
[-        ] process > NFCORE_HIC:HIC:MULTIQC         -

[a3/049d16] process > NFCORE_HIC:HIC:INPUT_CHECK:... [100%] 1 of 1, cached: 1
[69/8eacd4] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1
[f8/131384] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1 ✔
[-        ] process > NFCORE_HIC:HIC:FASTQC          -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:GET_V... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:BUILD... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:ICE_N... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:SPLIT... -
[-        ] process > NFCORE_HIC:HIC:HIC_PLOT_DIS... -
[-        ] process > NFCORE_HIC:HIC:COMPARTMENTS... -
[-        ] process > NFCORE_HIC:HIC:TADS:COOLTOO... -
[-        ] process > NFCORE_HIC:HIC:CUSTOM_DUMPS... -
[-        ] process > NFCORE_HIC:HIC:MULTIQC         -
[[id:TDMSO, single_end:false, chunk:0], [/data/01_with_trimming_real/out_trim/TDMSO_trim.R1.fastq.gz, /data/01_with_trimming_real/out_trim/TDMSO_trim.R2.fastq.gz]]

[a3/049d16] process > NFCORE_HIC:HIC:INPUT_CHECK:... [100%] 1 of 1, cached: 1 ✔
[69/8eacd4] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1
[f8/131384] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1 ✔
[-        ] process > NFCORE_HIC:HIC:FASTQC          [  0%] 0 of 1
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... [  0%] 0 of 2
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:GET_V... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:BUILD... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:ICE_N... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:SPLIT... -
[-        ] process > NFCORE_HIC:HIC:HIC_PLOT_DIS... -
[-        ] process > NFCORE_HIC:HIC:COMPARTMENTS... -
[-        ] process > NFCORE_HIC:HIC:TADS:COOLTOO... -
[-        ] process > NFCORE_HIC:HIC:CUSTOM_DUMPS... -
[-        ] process > NFCORE_HIC:HIC:MULTIQC         -
[[id:TDMSO, single_end:false, chunk:0], [/data/01_with_trimming_real/out_trim/TDMSO_trim.R1.fastq.gz, /data/01_with_trimming_real/out_trim/TDMSO_trim.R2.fastq.gz]]

[a3/049d16] process > NFCORE_HIC:HIC:INPUT_CHECK:... [100%] 1 of 1, cached: 1 ✔
[69/8eacd4] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1 ✔
[f8/131384] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1 ✔
[-        ] process > NFCORE_HIC:HIC:FASTQC          [  0%] 0 of 1
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... [  0%] 0 of 2
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:GET_V... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:BUILD... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:ICE_N... -
[6a/3e758f] process > NFCORE_HIC:HIC:COOLER:COOLE... [100%] 3 of 3, cached: 3 ✔
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:SPLIT... -
[-        ] process > NFCORE_HIC:HIC:HIC_PLOT_DIS... -
[-        ] process > NFCORE_HIC:HIC:COMPARTMENTS... -
[-        ] process > NFCORE_HIC:HIC:TADS:COOLTOO... -
[-        ] process > NFCORE_HIC:HIC:CUSTOM_DUMPS... -
[-        ] process > NFCORE_HIC:HIC:MULTIQC         -
[[id:TDMSO, single_end:false, chunk:0], [/data/01_with_trimming_real/out_trim/TDMSO_trim.R1.fastq.gz, /data/01_with_trimming_real/out_trim/TDMSO_trim.R2.fastq.gz]]

executor >  slurm (1)
[a3/049d16] process > NFCORE_HIC:HIC:INPUT_CHECK:... [100%] 1 of 1, cached: 1 ✔
[69/8eacd4] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1 ✔
[f8/131384] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1 ✔
[-        ] process > NFCORE_HIC:HIC:FASTQC          [  0%] 0 of 1
[e7/0a8c55] process > NFCORE_HIC:HIC:HICPRO:HICPR... [  0%] 0 of 2
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:GET_V... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:BUILD... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:ICE_N... -
[6a/3e758f] process > NFCORE_HIC:HIC:COOLER:COOLE... [100%] 3 of 3, cached: 3 ✔
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:SPLIT... -
[-        ] process > NFCORE_HIC:HIC:HIC_PLOT_DIS... -
[-        ] process > NFCORE_HIC:HIC:COMPARTMENTS... -
[-        ] process > NFCORE_HIC:HIC:TADS:COOLTOO... -
[-        ] process > NFCORE_HIC:HIC:CUSTOM_DUMPS... -
[-        ] process > NFCORE_HIC:HIC:MULTIQC         -
[[id:TDMSO, single_end:false, chunk:0], [/data/01_with_trimming_real/out_trim/TDMSO_trim.R1.fastq.gz, /data/01_with_trimming_real/out_trim/TDMSO_trim.R2.fastq.gz]]

executor >  slurm (2)
[a3/049d16] process > NFCORE_HIC:HIC:INPUT_CHECK:... [100%] 1 of 1, cached: 1 ✔
[69/8eacd4] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1 ✔
[f8/131384] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1 ✔
[f4/e422b9] process > NFCORE_HIC:HIC:FASTQC (TDMSO)  [  0%] 0 of 1
[e7/0a8c55] process > NFCORE_HIC:HIC:HICPRO:HICPR... [  0%] 0 of 2
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:GET_V... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:BUILD... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:ICE_N... -
[6a/3e758f] process > NFCORE_HIC:HIC:COOLER:COOLE... [100%] 3 of 3, cached: 3 ✔
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:SPLIT... -
[-        ] process > NFCORE_HIC:HIC:HIC_PLOT_DIS... -
[-        ] process > NFCORE_HIC:HIC:COMPARTMENTS... -
[-        ] process > NFCORE_HIC:HIC:TADS:COOLTOO... -
[-        ] process > NFCORE_HIC:HIC:CUSTOM_DUMPS... -
[-        ] process > NFCORE_HIC:HIC:MULTIQC         -
[[id:TDMSO, single_end:false, chunk:0], [/data/01_with_trimming_real/out_trim/TDMSO_trim.R1.fastq.gz, /data/01_with_trimming_real/out_trim/TDMSO_trim.R2.fastq.gz]]

executor >  slurm (3)
[a3/049d16] process > NFCORE_HIC:HIC:INPUT_CHECK:... [100%] 1 of 1, cached: 1 ✔
[69/8eacd4] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1 ✔
[f8/131384] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1 ✔
[f4/e422b9] process > NFCORE_HIC:HIC:FASTQC (TDMSO)  [  0%] 0 of 1
[b6/d18468] process > NFCORE_HIC:HIC:HICPRO:HICPR... [  0%] 0 of 2
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:GET_V... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:BUILD... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:ICE_N... -
[6a/3e758f] process > NFCORE_HIC:HIC:COOLER:COOLE... [100%] 3 of 3, cached: 3 ✔
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:SPLIT... -
[-        ] process > NFCORE_HIC:HIC:HIC_PLOT_DIS... -
[-        ] process > NFCORE_HIC:HIC:COMPARTMENTS... -
[-        ] process > NFCORE_HIC:HIC:TADS:COOLTOO... -
[-        ] process > NFCORE_HIC:HIC:CUSTOM_DUMPS... -
[-        ] process > NFCORE_HIC:HIC:MULTIQC         -
[[id:TDMSO, single_end:false, chunk:0], [/data/01_with_trimming_real/out_trim/TDMSO_trim.R1.fastq.gz, /data/01_with_trimming_real/out_trim/TDMSO_trim.R2.fastq.gz]]

executor >  slurm (3)
[a3/049d16] process > NFCORE_HIC:HIC:INPUT_CHECK:... [100%] 1 of 1, cached: 1 ✔
[69/8eacd4] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1 ✔
[f8/131384] process > NFCORE_HIC:HIC:PREPARE_GENO... [100%] 1 of 1, cached: 1 ✔
[f4/e422b9] process > NFCORE_HIC:HIC:FASTQC (TDMSO)  [  0%] 0 of 1
[b6/d18468] process > NFCORE_HIC:HIC:HICPRO:HICPR... [  0%] 0 of 2
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:GET_V... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:MERGE... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:HICPR... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:BUILD... -
[-        ] process > NFCORE_HIC:HIC:HICPRO:ICE_N... -
[6a/3e758f] process > NFCORE_HIC:HIC:COOLER:COOLE... [100%] 3 of 3, cached: 3 ✔
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:COOLE... -
[-        ] process > NFCORE_HIC:HIC:COOLER:SPLIT... -
[-        ] process > NFCORE_HIC:HIC:HIC_PLOT_DIS... -
[-        ] process > NFCORE_HIC:HIC:COMPARTMENTS... -
[-        ] process > NFCORE_HIC:HIC:TADS:COOLTOO... -
[-        ] process > NFCORE_HIC:HIC:CUSTOM_DUMPS... -
[-        ] process > NFCORE_HIC:HIC:MULTIQC         -

@Krithika-Bhuvan Krithika-Bhuvan mentioned this issue Apr 30, 2024
Open
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
2 participants
@Krithika-Bhuvan @nservant