TCGA_BreastCancer_RPPA
Status: Complete
Testing Directory . . .
Results: PASS
Testing Configuration File . . .
✅ config.yaml contains all necessary configurations.
✅ Title is less than 300 characters
✅ description.md contains a description.
Results: PASS
Running Install . . .
Executing install.sh: Success
Results: PASS
Testing file paths:
✅ test_data.tsv exists.
✅ test_metadata.tsv exists.
✅ download.sh exists.
✅ install.sh exists.
✅ parse.sh exists.
✅ cleanup.sh exists.
✅ description.md exists.
✅ config.yaml exists.
Running user code . . .
Executing download.sh: Success
Executing parse.sh: Success
✅ data.tsv.gz was created and zipped correctly.
✅ metadata.tsv.gz was created and zipped correctly.
Results: PASS
Testing Key Files:
✅ test_data.tsv contains enough unique samples to test
✅ test_data.tsv contains enough test cases (8; min: 8)
✅ test_metadata.tsv contains enough unique samples to test
✅ test_metadata.tsv contains enough test cases (12; min: 8)
Results: PASS
First 5 columns and 5 rows of data.tsv.gz:
| Sample | 14-3-3_beta-R-V | 14-3-3_epsilon-M-C | 14-3-3_zeta-R-V | 4E-BP1-R-V |
|---|---|---|---|---|
| TCGA-A7-A4SD-01 | -0.1118674675 | 0.0557315650000003 | -0.2758670465 | 0.405752353 |
| TCGA-E2-A15A-06 | -0.22705919575 | -0.14114607775 | 0.16453064175 | 0.0347185742499999 |
| TCGA-OL-A66K-01 | 0.442160763 | 0.1245134725 | -0.345147712 | -0.2655260375 |
| TCGA-AQ-A54O-01 | -0.0532260532500002 | 0.10641983825 | 0.42880721875 | 0.56220893625 |
Columns: 282 Rows: 890
“data.tsv.gz” Test Cases (from rows in test file). . .
✅ First column of file is titled “Sample”
✅ Row 1: Success
✅ Row 2: Success
✅ Row 3: Success
✅ Row 4: Success
✅ Row 5: Success
✅ Row 6: Success
✅ Row 7: Success
✅ Row 8: Success
Results: PASS
First 3 columns and 5 rows of metadata.tsv.gz:
| Sample | Variable | Value |
|---|---|---|
| TCGA-A2-A0T1-01 | Somatic mutation | BRCA |
| TCGA-A7-A3J0-01 | Somatic mutation | BRCA |
| TCGA-AO-A126-01 | Somatic mutation | BRCA |
| TCGA-E2-A14X-01 | Somatic mutation | BRCA |
Columns: 3 Rows: 901
“metadata.tsv.gz” Test Cases (from rows in test file). . .
✅ First column of file is titled “Sample”
⚠ The value for variable "Somatic mutation" for all samples is the same ("BRCA"). This variable has been removed from metadata.tsv.gz
✅ Row 1: Success
✅ Row 2: Success
✅ Row 3: Success
✅ Row 4: Success
✅ Row 5: Success
✅ Row 6: Success
✅ Row 7: Success
✅ Row 8: Success
✅ Row 9: Success
✅ Row 10: Success
✅ Row 11: Success
✅ Row 12: Success
Results: PASS
Comparing samples in both files . . .
✅ Samples are the same in both “data.tsv.gz” & “metadata.tsv.gz”