LINCS_PhaseI_Level3
Status: Failed
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 (12; min: 8)
✅ test_metadata.tsv contains enough unique samples to test
✅ test_metadata.tsv contains enough test cases (39; min: 8)
Results: PASS
First 5 columns and 5 rows of data.tsv.gz:
| Sample | PSME1 | ATF1 | RHEB | FOXO3 |
|---|---|---|---|---|
| CPC005_A375_6H_X1_B3_DUO52HI53LO:K06 | 11.0495004654 | 8.16800022125 | 12.7961997986 | 5.45459985733 |
| CPC005_A375_6H_X2_B3_DUO52HI53LO:K06 | 10.6127996445 | 7.78684997559 | 12.0471000671 | 6.32849979401 |
| CPC005_A375_6H_X3_B3_DUO52HI53LO:K06 | 10.6833000183 | 7.74604988098 | 12.3447999954 | 6.06804990768 |
| CPC005_A375_6H_X1_B3_DUO52HI53LO:C19 | 10.6188001633 | 8.22739982605 | 12.7084999084 | 5.39309978485 |
Columns: 12329 Rows: 1319139
“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 |
|---|---|---|
| ASG001_MCF7_24H_X1_B7_DUO52HI53LO:F13 | rna_plate | ASG001_MCF7_24H_X1 |
| ASG001_MCF7_24H_X1_B7_DUO52HI53LO:F13 | rna_well | F13 |
| ASG001_MCF7_24H_X1_B7_DUO52HI53LO:F13 | pert_id | DMSO |
| ASG001_MCF7_24H_X1_B7_DUO52HI53LO:F13 | pert_iname | DMSO |
Columns: 3 Rows: 23138458
“metadata.tsv.gz” Test Cases (from rows in test file). . .
✅ First column of file is titled “Sample”
⚠ The value for variable "donor_ethnicity" for all samples is the same ("Caucasian"). This variable has been removed from metadata.tsv.gz
✅ Row 1: Success
✅ Row 2: Success
❌ Row 3: Fail
- “ASG001_MCF7_24H_X1_B7_DUO52HI53LO:F13 is_touchstone 1” is not found.
❌ Row 4: Fail
- “ASG001_MCF7_24H_X1_B7_DUO52HI53LO:F13 canonical_smiles CS(=O)C” is not found.
❌ Row 5: Fail
- “ASG001_MCF7_24H_X1_B7_DUO52HI53LO:F13 tas_q75 0.122766” is not found.
❌ Row 6: Fail
- “ASG001_MCF7_24H_X1_B7_DUO52HI53LO:F13 icc 0.313591927289963” is not found.
✅ Row 7: Success
✅ Row 8: Success
✅ Row 9: Success
✅ Row 10: Success
✅ Row 11: Success
✅ Row 12: Success
❌ Row 13: Fail
- “PCLB002_MCF7_24H_X3_B13:P24 is_touchstone 0” is not found.
❌ Row 14: Fail
- “PCLB002_MCF7_24H_X3_B13:P24 canonical_smiles COCC1OC(=O)c2coc3c2C1(C)C1=C(C2CCC(=O)C2(C)CC1OC(C)=O)C3=O” is not found.
❌ Row 15: Fail
- “PCLB002_MCF7_24H_X3_B13:P24 tas_q75 0.41063425” is not found.
❌ Row 16: Fail
- “PCLB002_MCF7_24H_X3_B13:P24 icc 0.478662326931953” is not found.
✅ Row 17: Success
✅ Row 18: Success
✅ Row 19: Success
✅ Row 20: Success
✅ Row 21: Success
✅ Row 22: Success
❌ Row 23: Fail
- “KDB001_MCF7_144H_X3_B1_DUO53HI52LO:D04 is_touchstone 1” is not found.
❌ Row 24: Fail
- “KDB001_MCF7_144H_X3_B1_DUO53HI52LO:D04 tas_q75 0.3074425” is not found.
❌ Row 25: Fail
- “KDB001_MCF7_144H_X3_B1_DUO53HI52LO:D04 icc 0.682715356349945” is not found.
✅ Row 26: Success
✅ Row 27: Success
✅ Row 28: Success
✅ Row 29: Success
✅ Row 30: Success
✅ Row 31: Success
❌ Row 32: Fail
- “CPC001_VCAP_6H_X5_B5_DUO52HI53LO:M23 is_touchstone 1” is not found.
❌ Row 33: Fail
- “CPC001_VCAP_6H_X5_B5_DUO52HI53LO:M23 pubchem_cid 4452” is not found.
❌ Row 34: Fail
- “CPC001_VCAP_6H_X5_B5_DUO52HI53LO:M23 tas_q75 0.219453” is not found.
❌ Row 35: Fail
- “CPC001_VCAP_6H_X5_B5_DUO52HI53LO:M23 icc 0.394875109195709” is not found.
✅ Row 36: Success
✅ Row 37: Success
✅ Row 38: Success
✅ Row 39: Success
Results: FAIL
Comparing samples in both files . . .
✅ Samples are the same in both “data.tsv.gz” & “metadata.tsv.gz”