How to select from nested arrays

[Tj Idowu]

Hello,

I am trying to select specific values from a nested array. The array is the name of some output files that are grouped together based on unique features. It is the output from when I use the .view() function on the process that generates the files.

Example:

[f1_r1-0_1, [[patho_Ecoli_f1_r1-0_1, /nfs/staging/idowu /patho_Ecoli_f1_r1-0_1_R1.fq], [nonpatho_Ecoli_f1_r1-0_1, /nfs/staging/idowu/nonpatho_Ecoli_f1_r1-0_1_R1.fq]]]

[f1_r1-0_6, [[patho_Ecoli_f1_r1-0_6, /nfs/staging/idowu/patho_Ecoli_f1_r1-0_6_R1.fq], [nonpatho_Ecoli_f1_r1-0_6, /nfs/staging/idowu /nonpatho_Ecoli_f1_r1-0_6_R1.fq]]]

[f1_r1-0_2, [[patho_Ecoli_f1_r1-0_2, /nfs/staging/idowu/patho_Ecoli_f1_r1-0_2_R1.fq], [nonpatho_Ecoli_f1_r1-0_2, /nfs/staging/idowu/nonpatho_Ecoli_f1_r1-0_2_R1.fq]]]

[f1_r1-0_8, [[patho_Ecoli_f1_r1-0_8, /nfs/staging/idowu/patho_Ecoli_f1_r1-0_8_R1.fq], [nonpatho_Ecoli_f1_r1-0_8, /nfs/staging/idowu/nonpatho_Ecoli_f1_r1-0_8_R1.fq]]]

[f1_r0-1_1, [[patho_Ecoli_f1_r0-1_1, /nfs/staging/idowu/patho_Ecoli_f1_r0-1_1_R1.fq], [nonpatho_Ecoli_f1_r0-1_1, /nfs/staging/idowu/nonpatho_Ecoli_f1_r0-1_1_R1.fq]]]

[f1_r1-0_9, [[patho_Ecoli_f1_r1-0_9, /nfs/staging/idowu /patho_Ecoli_f1_r1-0_9_R1.fq], [nonpatho_Ecoli_f1_r1-0_9, /nfs/staging/idowu/nonpatho_Ecoli_f1_r1-0_9_R1.fq]]]

[f1_r1-0_5, [[nonpatho_Ecoli_f1_r1-0_5, /nfs/staging/idowu/nonpatho_Ecoli_f1_r1-0_5_R1.fq], [patho_Ecoli_f1_r1-0_5, /nfs/staging/idowu/patho_Ecoli_f1_r1-0_5_R1.fq]]]

[f1_r10-1_8, [[nonpatho_Ecoli_f1_r10-1_8, /nfs/staging/idowu/nonpatho_Ecoli_f1_r10-1_8_R1.fq], [patho_Ecoli_f1_r10-1_8, /nfs/staging/idowuo/patho_Ecoli_f1_r10-1_8_R1.fq]]]

[f1_r0-1_3, [[patho_Ecoli_f1_r0-1_3, /nfs/staging/idowu/patho_Ecoli_f1_r0-1_3_R1.fq], [nonpatho_Ecoli_f1_r0-1_3, /nfs/staging/idowu /nonpatho_Ecoli_f1_r0-1_3_R1.fq]]]

[f1_r0-1_4, [[patho_Ecoli_f1_r0-1_4, /nfs/staging/idowu/patho_Ecoli_f1_r0-1_4_R1.fq], [nonpatho_Ecoli_f1_r0-1_4, /nfs/staging/idowu/nonpatho_Ecoli_f1_r0-1_4_R1.fq]]]

I am trying to get only the file paths; either one, or both from each array while still maintaining their grouping from the array.

Please how do I go about doing this? 

[Anand]

Not sure if this got addressed

Check this https://groups.google.com/g/nextflow/c/tj0vHcqKANc/m/xET8X_--EwAJ

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