README.md

Test Suite

Tests for this module can be found in the test_samplesheet_validator script. These have been written to cover testing all the functions in this package.

Fixtures

Tests fixtures have been created which are passed into the test functions in order to test the functions in samplesheet_validator.py. These test fixtures cover both invalid and valid SampleSheets, and those that are invalid cover the various different ways in which a sample sheet can be invalid.

Test Samplesheets

Invalid Samplesheets

Name	Why is it invalid?
21aA08_A01229_0040_AHKGTFDRXY_SampleSheet.csv	Empty, Invalid date
21108_A01229_0040_AHKGTFDRXY_SampleSheet.csv	None
210917_NB551068_0409_ABCDEFGJIK_SampleSheet.csv	Wrong naming format of at least one sample names
210917_NB551068_9876_AH3YNFAFX3_SampleSheet.csv	Invalid sample count for at least one sample name
211008_1229_0040_AHKGTFDRXY_SampleSheet.csv	Empty, invalid sequencer ID
211008_A01229_0_AHKGTFDRXY_SampleSheet.csv	Empty, invalid autoincrementing_number
211008_A01229_0040_1AHK£lRXY_SampleSheet.csv	Empty, invalid flow cell ID
211008_A01229_0040_AHKGTFDRXY_samplesheet.csv	Empty, with invalid 'SampleSheet' string
211008_A01229_AHKGTFDRXY_SampleSheet.abc	Empty, wrong file extension
211008_A01229_AHKGTFDRXY_SampleSheet.csv	Empty, wrong naming format
220413_A01229_0032_AHKGTFDRXY_SampleSheet.csv	Empty with valid name
220506_NB551068_0409_AH3YNFAFX3_SampleSheet.csv	Invalid contents - invalid sex
221021_A01229_0145_ZXYEORIUGI_SampleSheet.csv	Invalid contents - invalid secondary identifier
221021_A01229_0398_BHGGTHDMXY_SampleSheet.csv
221024_A01229_0146_EIROFPWYJL_SampleSheet.csv
221024_A01229_0345_BERTYG2DRX2_SampleSheet.csv
221024_A01229_3746_BERIOG2DRX2_SampleSheet.csv
230309_E02631_4297_000000000-KRDLT_SampleSheet.csv	Samplesheet containing multiple errors
230309_M02631_0123_000000000-ABCDE_SampleSheet.csv	Invalid contents - non matching sample names
230309_M02631_0123_000000000-KRDLT_SampleSheet.csv	Invalid contents - invalid headers
230309_M02631_0275_000000000-ERTGL_SampleSheet.csv	Invalid contents - invalid initials
230309_M02631_0345_000000000-KRDLT_SampleSheet.csv	Invalid contents - specimen/DNA number invalid
230309_M02631_4567_000000000-KRDLT_SampleSheet.csv	Invalid contents - invalid panel name
231012_M02631_1234_000000000-LBGMH_SampleSheet.csv	Invalid contents - Not enough identifiers in sample name
231201_NB552085_0945_AHVNWYERYU_SampleSheet.csv	Invalid contents - invalid panel number
2110915_M02353_0632_000000000-K242J_SampleSheet.csv	Invalid date

Valid Samplesheets

• 210917_NB551068_0409_AH3YNFAFX3_SampleSheet.csv
• 221021_A01229_0145_BHGGTHDMXY_SampleSheet.csv
• 221024_A01229_0146_BHKGG2DRX2_SampleSheet.csv
• 230309_M02631_0275_000000000-KRDLT_SampleSheet.csv
• 231012_M02631_0285_000000000-LBGMH_SampleSheet.csv
• 231116_NB551068_0551_AHLCYNAFX5_SampleSheet.csv
• 231201_NB552085_0291_AHVNWYAFX5_SampleSheet.csv