LINCS_PhaseII_Level4
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 (12; min: 8)
✅ test_metadata.tsv contains enough unique samples to test
✅ test_metadata.tsv contains enough test cases (15; min: 8)
Results: PASS
First 5 columns and 5 rows of data.tsv.gz:
| Sample | DDR1 | PAX8 | GUCA1A | EPHB3 |
|---|---|---|---|---|
| REP.A001_A375_24H_X1_B22:A03 | 14.820400238 | 0.0 | -1.33200001717 | 1.44690001011 |
| REP.A001_A375_24H_X1_B22:A04 | -0.519999980927 | 4.31339979172 | -1.82099997997 | -1.32109999657 |
| REP.A001_A375_24H_X1_B22:A05 | -1.03690004349 | -1.12460005283 | 0.805400013924 | -0.745700001717 |
| REP.A001_A375_24H_X1_B22:A06 | -0.300500005484 | -0.467000007629 | -0.443899989128 | -0.776799976826 |
Columns: 12329 Rows: 345977
“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
✅ Row 9: Success
✅ Row 10: Success
✅ Row 11: Success
✅ Row 12: Success
Results: PASS
First 3 columns and 5 rows of metadata.tsv.gz:
| Sample | Variable | Value |
|---|---|---|
| LJP005_A375_24H_X1_B19:A03 | cell_id | A375 |
| LJP005_A375_24H_X1_B19:A03 | cell_type | cell line |
| LJP005_A375_24H_X1_B19:A03 | base_cell_id | A375 |
| LJP005_A375_24H_X1_B19:A03 | sample_type | tumor |
Columns: 3 Rows: 7420838
“metadata.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
✅ Row 9: Success
✅ Row 10: Success
✅ Row 11: Success
✅ Row 12: Success
✅ Row 13: Success
✅ Row 14: Success
✅ Row 15: Success
Results: PASS
Comparing samples in both files . . .
✅ Samples are the same in both “data.tsv.gz” & “metadata.tsv.gz”