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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,8 @@ | ||
| # Mandetory | ||
| COLUMN_MAP_FILE=Cell-line_columns.txt | ||
|
|
||
| #Optional | ||
| WORD_MAP_FILE=Cell-line_wordmap.txt | ||
| USE_R_UPLOAD=Y # default is N (use kettle) | ||
| #TOP_NODE_PREFIX= | ||
|
|
13 changes: 13 additions & 0 deletions
13
tests/line_endings/carriage_return/clinical/Cell-line_columns.txt
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,13 @@ | ||
| Filename Category Code Column Number Data Label Data Label Source Control Vocab Cd | ||
| Cell-line_NHTMP.txt Subjects 1 SUBJ_ID | ||
| Cell-line_NHTMP.txt Subjects 2 General_call | ||
| Cell-line_clinical.txt Characteristics 1 \ 2 | ||
| Cell-line_clinical.txt Subjects 1 SUBJ_ID | ||
| Cell-line_clinical.txt Characteristics 2 DATA_LABEL | ||
| Cell-line_clinical.txt Characteristics 3 Organism | ||
| Cell-line_clinical.txt Characteristics 4 Origin_tissue | ||
| Cell-line_clinical.txt Characteristics 5 Cell_type | ||
| Cell-line_clinical.txt Characteristics 6 Disease | ||
| Cell-line_clinical.txt Characteristics 7 Race | ||
| Cell-line_clinical.txt Characteristics 8 Age | ||
| Cell-line_clinical.txt Characteristics 9 Gender |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,8 @@ | ||
| # Mandetory | ||
| COLUMN_MAP_FILE=Cell-line_columns.txt | ||
|
|
||
| #Optional | ||
| WORD_MAP_FILE=Cell-line_wordmap.txt | ||
| USE_R_UPLOAD=Y # default is N (use kettle) | ||
| #TOP_NODE_PREFIX= | ||
|
|
72 changes: 72 additions & 0 deletions
72
tests/line_endings/new_line/clinical/Cell-line_columns.txt
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,72 @@ | ||
| Filename Category Code Column number Data label Data Label Source Control Vocab Cd | ||
| Cell-line_clinical.txt Subjects 1 SUBJ_ID | ||
| Cell-line_clinical.txt Characteristics 1 \ 2 | ||
| Cell-line_clinical.txt Characteristics 2 DATA_LABEL | ||
| Cell-line_clinical.txt Characteristics 3 Organism | ||
| Cell-line_clinical.txt Characteristics 4 Origin tissue | ||
| Cell-line_clinical.txt Characteristics 5 Cell type | ||
| Cell-line_clinical.txt Characteristics 6 Disease | ||
| Cell-line_clinical.txt Characteristics 7 Race | ||
| Cell-line_clinical.txt Characteristics 8 Age | ||
| Cell-line_clinical.txt Characteristics 9 Gender | ||
| Cell-line_NHTMP.txt Subjects 1 SUBJ_ID | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\KRAS 2 General_call | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\KRAS 3 Non-synonymous_mutations | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\KRAS 4 Non-synonymous_mutations | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\KRAS 5 Non-synonymous_mutations | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\BRAF 6 General_call | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\BRAF 7 Non-synonymous_mutations | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\EGFR 8 General_call | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\EGFR 9 Non-synonymous_mutations | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\EGFR 10 Non-synonymous_mutations | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\PIK3CA 11 General_call | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\PIK3CA 12 Non-synonymous_mutations | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\PIK3CA 13 Non-synonymous_mutations | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Mutation_(DNA)\PIK3CA 14 Non-synonymous_mutations | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling 15 Microsatellite_instability_(DNA) | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Promotor_methylation_(DNA) 16 DCR1 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Promotor_methylation_(DNA) 17 PHACTR3 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Promotor_methylation_(DNA) 18 WRN | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Copy_number_aberrations_(DNA) 19 MPLA-gain-P146 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Copy_number_aberrations_(DNA) 20 MPLA-gain-P146 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Copy_number_aberrations_(DNA) 21 MPLA-gain-P146 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Copy_number_aberrations_(DNA) 22 MPLA-loss-X006 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Copy_number_aberrations_(DNA) 23 MPLA-loss-X006 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Copy_number_aberrations_(DNA) 24 MPLA-loss-X006 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\AURKA_(Ct-ratio)\HCT116 25 MLH1 0-2 px+22 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\AURKA_(Ct-ratio)\HCT116 26 MLH1 0-2+AURKA px+20 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\AURKA_(Ct-ratio)\HCT116 27 MLH1 0-2+AURKA px+22 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\AURKA_(Ct-ratio)\HCT116 28 MLH1 1-2 px+22 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\AURKA_(Ct-ratio)\HCT116 29 MLH1 1-2+AURKA px+20 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\AURKA_(Ct-ratio)\HCT116 30 MLH1 1-2+AURKA px+22 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 31 pCMV6-GFP p130 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 32 pCMV6-GFP p131 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 33 TPX2-blunt p130 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 34 TPX2-blunt p131 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 35 TPX2-blunt p132 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 36 TPX2-GFP p130 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 37 TPX2-GFP p131 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 38 TPX2-GFP p132 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 39 TPX2-MCS p130 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 40 TPX2-MCS p131 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 41 Untreated p129 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 42 Untreated p130 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 43 Untreated p132 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 44 MLH1 0-2+AURKA px+14 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 45 MLH1 0-2+AURKA px+17 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 46 MLH1 0-2+AURKA px+24 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 47 MLH1 0-2+AURKA px+27 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 48 MLH1 1-2+AURKA px+14 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 49 MLH1 1-2+AURKA px+17 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 50 MLH1 1-2+AURKA px+27 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 51 MLH1 1-2+AURKA pCMV6-GFP px+24 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 52 MLH1 1-2+AURKA pCMV6-GFP px+25 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 53 MLH1 1-2+AURKA TPX2-blunt px+24 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 54 MLH1 1-2+AURKA TPX2-blunt px+25 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 55 MLH1 1-2+AURKA TPX2-GFP px+24 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 56 MLH1 1-2+AURKA TPX2-GFP px+25 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 57 MLH1 1-2+AURKA TPX2-MCS px+24 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 58 MLH1 1-2+AURKA TPX2-MCS px+25 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 59 MLH1 1-2+AURKA px+24 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 60 and AURKA px+88 | ||
| Cell-line_NHTMP.txt Molecular profiling\Non-highthroughput molecular profiling\Expression_(mRNA)\TPX2_(Ct-ratio)\HCT116 61 and AURKA px+89 |