METABRIC_cBio
Status: Complete
Testing Directory . . .
Results: PASS
Testing Configuration File . . .
✅ config.yaml contains all necessary configurations.
✅ Title is less than 100 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 (9; min: 8)
Results: PASS
First 5 columns and 5 rows of data.tsv.gz:
| Sample | 1-Mar | 1-Sep | 10-Mar | 10-Sep |
|---|---|---|---|---|
| MB-0000 | 5.637055414 | 5.5122099 | 5.235735917 | 7.180623224 |
| MB-0002 | 5.52651759 | 5.483681622 | 5.168002061 | 7.178667891 |
| MB-0005 | 6.332868835 | 5.150019856 | 5.175685045 | 7.089595223 |
| MB-0006 | 6.048051079 | 5.637538225 | 5.215697492 | 6.621642185 |
Columns: 24368 Rows: 1905
“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 |
|---|---|---|
| MB-0000 | OS_MONTHS | 140.5 |
| MB-0000 | OS_STATUS | LIVING |
| MB-0000 | VITAL_STATUS | Living |
| MB-0000 | INTCLUST | 4ER+ |
Columns: 3 Rows: 11984852
“metadata.tsv.gz” Test Cases (from rows in test file). . .
✅ First column of file is titled “Sample”
⚠ The value for variable "SAMPLE_TYPE" for all samples is the same ("Primary"). This variable has been removed from metadata.tsv.gz
⚠ The value for variable "SomaticMutation__KRAS__Variant_Classification" for all samples is the same ("Missense_Mutation"). This variable has been removed from metadata.tsv.gz
⚠ The value for variable "SomaticMutation__NRAS__Variant_Classification" for all samples is the same ("Missense_Mutation"). This variable has been removed from metadata.tsv.gz
⚠ The value for variable "SomaticMutation__AGTR2__Variant_Classification" for all samples is the same ("Missense_Mutation"). 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
Results: PASS
Comparing samples in both files . . .
✅ Samples are the same in both “data.tsv.gz” & “metadata.tsv.gz”