RUN_GISTIC:ASSEMBLE_GISTIC_OUTPUT - KeyError: 'Unique Name' #33

executor >  local (2)
[71/96fd69] process > DINCALCILAB_SAMURAI:SAMURAI:SAMTOOLS_INDEX (16_11418_R)                   [100%] 6 of 6, cached: 6 ✔
[b3/ec30fc] process > DINCALCILAB_SAMURAI:SAMURAI:BAM_QC_PICARD:PICARD_COLLECTMULTIPLEMETRIC... [100%] 6 of 6, cached: 6 ✔
[-        ] process > DINCALCILAB_SAMURAI:SAMURAI:BAM_QC_PICARD:PICARD_COLLECTHSMETRICS         -
[e7/5de44c] process > DINCALCILAB_SAMURAI:SAMURAI:BAM_QC_PICARD:PICARD_COLLECTWGSMETRICS (VH... [100%] 6 of 6, cached: 6 ✔
[67/736e2a] process > DINCALCILAB_SAMURAI:SAMURAI:LIQUID_BIOPSY:HMMCOPY_READCOUNTER_ICHORCNA... [100%] 6 of 6, cached: 6 ✔
[5f/f979ef] process > DINCALCILAB_SAMURAI:SAMURAI:LIQUID_BIOPSY:RUN_ICHORCNA (M16_1190_R)       [100%] 6 of 6, cached: 6 ✔
[c4/ff4d01] process > DINCALCILAB_SAMURAI:SAMURAI:LIQUID_BIOPSY:AGGREGATE_ICHORCNA_TABLE (As... [100%] 1 of 1, cached: 1 ✔
[93/45a501] process > DINCALCILAB_SAMURAI:SAMURAI:LIQUID_BIOPSY:CORRECT_LOGR_ICHORCNA (Corre... [100%] 1 of 1, cached: 1 ✔
[62/bb08b1] process > DINCALCILAB_SAMURAI:SAMURAI:LIQUID_BIOPSY:CONCATENATE_BIN_PLOTS (Conca... [100%] 1 of 1, cached: 1 ✔
[d5/6721e1] process > DINCALCILAB_SAMURAI:SAMURAI:RUN_GISTIC:GISTIC2 (Run Gistic2)              [100%] 1 of 1, cached: 1 ✔
[52/316646] process > DINCALCILAB_SAMURAI:SAMURAI:RUN_GISTIC:ASSEMBLE_GISTIC_OUTPUT (Rearran... [  0%] 0 of 1
[fc/fcc57e] process > DINCALCILAB_SAMURAI:SAMURAI:RUN_GISTIC:MAFTOOLS (Maftools Plot)           [  0%] 0 of 1
[-        ] process > DINCALCILAB_SAMURAI:SAMURAI:MULTIQC 
-[dincalcilab/samurai] Pipeline completed with errors-
ERROR ~ Error executing process > 'DINCALCILAB_SAMURAI:SAMURAI:RUN_GISTIC:ASSEMBLE_GISTIC_OUTPUT (Rearrange GISTIC2 output)'

Caused by:
  Process `DINCALCILAB_SAMURAI:SAMURAI:RUN_GISTIC:ASSEMBLE_GISTIC_OUTPUT (Rearrange GISTIC2 output)` terminated with an error exit status (1)

Command executed:

  gistic lesion_table -t all --genome hg38 gistic_results gistic_summary_mqc
  mv gistic_summary_mqc.focal_lesions.txt gistic_summary_mqc.txt
  
  # Only do the rename if the file was produced, i.e. when broad analysis runs
  if [ -f gistic_summary_mqc.broad_lesions.txt ]; then
      mv gistic_summary_mqc.broad_lesions.txt gistic_broad_lesions_mqc.txt
  fi
  
  gistic gene_table --genome hg38 gistic_results gistic
  gistic copy_number_state_table --genome hg38 gistic_results gistic_cn_states.txt
  gistic log2ratio_table --genome hg38 gistic_results gistic_log2R.txt
  
  cat <<-END_VERSIONS > versions.yml
  "DINCALCILAB_SAMURAI:SAMURAI:RUN_GISTIC:ASSEMBLE_GISTIC_OUTPUT":
      gistic-cli: $(gistic --version | cut -d ' ' -f2)
  END_VERSIONS

nextflow run dincalcilab/samurai --input short_ver_test_new_version_samurai.csv  -profile docker --outdir SAMURAI_SHORT_VER_RUN_FROM_BAM --genome hg38 --fasta ~/Reference/bwa_GRCh38/Homo_sapiens.GRCh38.dna.primary_assembly.fa --fai ~/Reference/bwa_GRCh38/Homo_sapiens.GRCh38.dna.primary_assembly.fa.fai --dict ~/Reference/bwa_GRCh38/Homo_sapiens.GRCh38.dna.primary_assembly.fa.dict --analysis_type liquid_biopsy --caller ichorcna --binsize 1000 --normal_panel ~/Projects/ichorcna_u/ichorCNA_U/src_ichorCNA/inst/extdata/HD_ULP_PoN_1Mb_median_normAutosome_mapScoreFiltered_median.rds --ichorcna_readcounter_chrs "1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,X,Y" --ichorcna_chrs_to_use "c(1:22)" --ichorcna_chrs_to_train "c(1:22)" --ichorcna_chrs_to_normalize "c(1:22)" --ichorcna_estimate_sc TRUE --ichorcna_gc_wig ~/Projects/ichorcna_u/ichorCNA_U/src_ichorCNA/inst/extdata/gc_hg38_1000kb.wig --ichorcna_map_wig ~/Projects/ichorcna_u/ichorCNA_U/src_ichorCNA/inst/extdata/map_hg38_1000kb.wig --ichorcna_centromere_file ~/Projects/ichorcna_u/ichorCNA_U/src_ichorCNA/inst/extdata/GRCh38.GCA_000001405.2_centromere_acen.txt   --ichorcna_normal_states "c(0.5,0.6,0.7,0.8,0.9)" --ichorcna_plotylim "c(-2, 2)" --max_memory 28.GB --compute_signatures TRUE --run_gistic TRUE --gistic_broad_analysis TRUE -resume