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Vdb 5863 #1007

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VDB-5863 saving work
aboshkin Jan 16, 2025
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VDB-5863 saving work
aboshkin Jan 17, 2025
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VDB-5863 saving work
aboshkin Jan 21, 2025
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4 changes: 3 additions & 1 deletion test/test-tools/qa-stats/CMakeLists.txt
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Original file line number Diff line number Diff line change
Expand Up @@ -38,14 +38,16 @@ if( NOT WIN32 )
SKIP_REGULAR_EXPRESSION "^Skipped"
)

# parsing fasta/fastq
file(GLOB INPUTS input/*.fast[aq])
foreach(i ${INPUTS})
get_filename_component(filename ${i} NAME)
add_test( NAME Test_qa_stats_${filename}
COMMAND sh -c "${BINDIR}/qa-stats ${i} 1>actual/${filename}.stdout 2>actual/${filename}.stderr"
COMMAND "./runtestcase.sh" "${BINDIR}/qa-stats ${i}" "." Test_qa_stats_${filename}
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
endforeach()

# fingerprinting
add_test( NAME Test_qa_stats_Finger_1
COMMAND "./runtestcase.sh" "${BINDIR}/qa-stats input/1.1.fastq --fingerprint" "." Test_qa_stats_Finger_1
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
Expand Down
162 changes: 162 additions & 0 deletions test/test-tools/qa-stats/expected/Test_qa_stats_001.R1.fastq.stdout
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Original file line number Diff line number Diff line change
@@ -0,0 +1,162 @@
{
"total": {
"reads": {
"count": 4,
"biological": 4,
"technical": 0
},
"bases": [
{
"base": "N",
"biological": 4
},
{
"base": "W",
"biological": 56
},
{
"base": "S",
"biological": 44
}
],
"spots": [
{
"nreads": 1,
"total": 4,
"biological": 4,
"no-biological": 0,
"technical": 0,
"no-technical": 4
}
],
"spot-layouts": [
{
"descriptor": "26BF",
"count": 4
}
],
"spectra": {
"W": [
{
"length": 0,
"power": 0.270833
},
{
"length": 1,
"power": 0.208333
},
{
"length": 2,
"power": 0.145833
},
{
"length": 3,
"power": 0.166667
},
{
"length": 4,
"power": 0.125
},
{
"length": 6,
"power": 0.0208333
},
{
"length": 7,
"power": 0.0416667
},
{
"length": 8,
"power": 0.0208333
}
],
"S": [
{
"length": 0,
"power": 0.277778
},
{
"length": 1,
"power": 0.138889
},
{
"length": 2,
"power": 0.25
},
{
"length": 3,
"power": 0.111111
},
{
"length": 4,
"power": 0.0833333
},
{
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},
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},
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"power": 0.0277778
},
{
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"power": 0.0277778
},
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"power": 0.0277778
}
],
"S-W": [
{
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"power": 0.574468
},
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},
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}
],
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},
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},
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"power": 0.130435
},
{
"length": 5,
"power": 0.0217391
}
]
},
"references": []
}
}
142 changes: 142 additions & 0 deletions test/test-tools/qa-stats/expected/Test_qa_stats_003.R1.fastq.stdout
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Original file line number Diff line number Diff line change
@@ -0,0 +1,142 @@
{
"total": {
"reads": {
"count": 2,
"biological": 2,
"technical": 0
},
"bases": [
{
"base": "N",
"biological": 2
},
{
"base": "W",
"biological": 25
},
{
"base": "S",
"biological": 25
}
],
"spots": [
{
"nreads": 1,
"total": 2,
"biological": 2,
"no-biological": 0,
"technical": 0,
"no-technical": 2
}
],
"spot-layouts": [
{
"descriptor": "26BF",
"count": 2
}
],
"spectra": {
"W": [
{
"length": 0,
"power": 0.238095
},
{
"length": 1,
"power": 0.142857
},
{
"length": 2,
"power": 0.238095
},
{
"length": 3,
"power": 0.190476
},
{
"length": 4,
"power": 0.047619
},
{
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"power": 0.047619
},
{
"length": 7,
"power": 0.0952381
}
],
"S": [
{
"length": 0,
"power": 0.380952
},
{
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"power": 0.142857
},
{
"length": 2,
"power": 0.238095
},
{
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},
{
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},
{
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"power": 0.047619
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{
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}
],
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],
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},
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"length": 1,
"power": 0.392857
},
{
"length": 2,
"power": 0.0714286
}
]
},
"references": []
}
}
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