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renew snapshots
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@kubranarci
kubranarci committed Jan 13, 2025
1 parent ce8c7d7 commit 7a84387
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Showing 3 changed files with 40 additions and 30 deletions.
19 changes: 12 additions & 7 deletions tests/liftover_test.nf.test.snap
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"content": [
67,
{
"BCFTOOLS_FILTER": {
"bcftools": 1.2
},
"BCFTOOLS_REHEADER": {
"bcftools": 1.18
},
Expand Down Expand Up @@ -164,6 +167,7 @@
"structural/test1/benchmarks/truvari/test1.HG002.delly.tp-comp.vcf.gz",
"structural/test1/benchmarks/truvari/test1.HG002.delly.tp-comp.vcf.gz.tbi",
"structural/test1/preprocess",
"structural/test1/preprocess/test1.filter.filter.vcf",
"structural/test1/preprocess/test1.filter.vcf",
"structural/test1/stats",
"structural/test1/stats/bcftools",
Expand All @@ -183,6 +187,7 @@
"structural/test2/benchmarks/truvari/test2.HG002.manta.tp-comp.vcf.gz",
"structural/test2/benchmarks/truvari/test2.HG002.manta.tp-comp.vcf.gz.tbi",
"structural/test2/preprocess",
"structural/test2/preprocess/test2.filter.filter.vcf",
"structural/test2/preprocess/test2.filter.vcf",
"structural/test2/stats",
"structural/test2/stats/bcftools",
Expand All @@ -193,16 +198,16 @@
[
"HG002.bcftools_stats.txt:md5,7c007a87b5730787e570712e784d3cc3",
"HG002_mqc.stats:md5,68681df47b35e3193be03610f5c6e3d6",
"test1.delly.bcftools_stats.txt:md5,d32a9bea755d2065e19e88b9159e2502",
"test1.delly_mqc.stats:md5,e140ad55975c767578b0dd6aff58ba29",
"test2.manta.bcftools_stats.txt:md5,99f8a0b12efa30c6253b44ebfeb9b1d6",
"test2.manta_mqc.stats:md5,1d74b41c6b970992e3a39682b0a68e23"
"test1.delly.bcftools_stats.txt:md5,aace5a23af8b02f56bcaf03722f9bb50",
"test1.delly_mqc.stats:md5,011ad66fec4287d32cb728c40e240c0b",
"test2.manta.bcftools_stats.txt:md5,1e700076bd303ee079b23658485eb7d4",
"test2.manta_mqc.stats:md5,011ad66fec4287d32cb728c40e240c0b"
]
],
"meta": {
"nf-test": "0.9.0",
"nextflow": "24.10.2"
"nf-test": "0.9.2",
"nextflow": "24.10.3"
},
"timestamp": "2024-12-03T15:52:10.533611573"
"timestamp": "2025-01-13T14:41:30.39094733"
}
}
34 changes: 18 additions & 16 deletions tests/liftover_truth.nf.test.snap
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Expand Up @@ -6,6 +6,9 @@
"BCFTOOLS_DEDUP": {
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"BCFTOOLS_FILTER": {
"bcftools": 1.2
},
"BCFTOOLS_MERGE": {
"bcftools": 1.2
},
Expand Down Expand Up @@ -45,9 +48,6 @@
"RTGTOOLS_VCFEVAL": {
"rtg-tools": "3.12.1"
},
"TABIX_BGZIP": {
"tabix": "1.19.1"
},
"TABIX_BGZIPTABIX": {
"tabix": "1.19.1"
},
Expand Down Expand Up @@ -269,6 +269,7 @@
"small/test1/benchmarks/rtgtools/test1.HG002.strelka.weighted_roc.tsv.gz",
"small/test1/preprocess",
"small/test1/preprocess/test1.dedup.sort.vcf.gz",
"small/test1/preprocess/test1.norm.filter.vcf",
"small/test1/stats",
"small/test1/stats/bcftools",
"small/test1/stats/bcftools/test1.strelka.bcftools_stats.txt",
Expand Down Expand Up @@ -302,6 +303,7 @@
"small/test2/benchmarks/rtgtools/test2.HG002.bcftools.weighted_roc.tsv.gz",
"small/test2/preprocess",
"small/test2/preprocess/test2.dedup.sort.vcf.gz",
"small/test2/preprocess/test2.norm.filter.vcf",
"small/test2/stats",
"small/test2/stats/bcftools",
"small/test2/stats/bcftools/test2.bcftools.bcftools_stats.txt"
Expand All @@ -325,16 +327,16 @@
"suffixpointer0:md5,468281ffb10d7dd934289af762a03781",
"HG002.sort.merged.bed:md5,5e997133249c2227cb5363b314245636",
"HG002.bcftools_stats.txt:md5,07fafa430abc857969015ea6a41d1032",
"test1.HG002.strelka.extended.csv:md5,fadf06276179c1cc388007e5651fb9af",
"test1.HG002.strelka.roc.Locations.INDEL.PASS.csv.gz:md5,a08665be8ea20855a14d6418d07521dc",
"test1.HG002.strelka.roc.Locations.INDEL.csv.gz:md5,8d4a20a5914379230952aeb252845e2d",
"test1.HG002.strelka.roc.Locations.SNP.PASS.csv.gz:md5,c546609a3e23b4c5c97ee0fc2e864e07",
"test1.HG002.strelka.roc.Locations.SNP.csv.gz:md5,8d2600c17665ed1299e2dd483705ddaa",
"test1.HG002.strelka.roc.all.csv.gz:md5,d0a4408438b2182cb82caec918c090f1",
"test1.HG002.strelka.summary.csv:md5,001fa2371777d1d2dc3eb0f4dcaca197",
"test1.HG002.strelka.phasing.txt:md5,0c9340e64e032b5f74d0ea3773464afd",
"test1.HG002.strelka.summary.txt:md5,4b775edb878759727ef66d5d5b2b9ee8",
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"test1.HG002.strelka.extended.csv:md5,111a236ca6b747face70e8111c09c51f",
"test1.HG002.strelka.roc.Locations.INDEL.PASS.csv.gz:md5,5425b34f4688dda4d55f9f7a73667b18",
"test1.HG002.strelka.roc.Locations.INDEL.csv.gz:md5,eb9834ec5660d1e32ade0c856b9cfb7c",
"test1.HG002.strelka.roc.Locations.SNP.PASS.csv.gz:md5,778eb91f54cb830fb91fcddc688668e0",
"test1.HG002.strelka.roc.Locations.SNP.csv.gz:md5,516a4b58814cf32245a5b2f2c0445c8e",
"test1.HG002.strelka.roc.all.csv.gz:md5,a69fb6ae5cd051d4607da0224009f1d1",
"test1.HG002.strelka.summary.csv:md5,d29cba645e161dbdeb6247f57fce5780",
"test1.HG002.strelka.phasing.txt:md5,38920536b8c3e241e873c07ba61762e6",
"test1.HG002.strelka.summary.txt:md5,6c43a0d1ad065f851942828259d551a5",
"test1.strelka.bcftools_stats.txt:md5,7d65792aa3a84de09675facf62135c93",
"test2.HG002.bcftools.extended.csv:md5,05c6efd85a9b9823a5ddfe6619be3323",
"test2.HG002.bcftools.roc.Locations.INDEL.PASS.csv.gz:md5,463cee548b7bdf133c0ae9b5803a50ca",
"test2.HG002.bcftools.roc.Locations.INDEL.csv.gz:md5,424e39c327ae6ef9001942bc895abdc9",
Expand All @@ -348,9 +350,9 @@
]
],
"meta": {
"nf-test": "0.9.0",
"nextflow": "24.10.2"
"nf-test": "0.9.2",
"nextflow": "24.10.3"
},
"timestamp": "2024-12-10T10:20:35.930923969"
"timestamp": "2025-01-13T14:48:00.444469734"
}
}
17 changes: 10 additions & 7 deletions tests/somatic_indel.nf.test.snap
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"content": [
27,
{
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"BCFTOOLS_REHEADER": {
"bcftools": 1.18
},
Expand Down Expand Up @@ -33,9 +36,6 @@
"PLOTS": {
"r-base": "4.3.1"
},
"TABIX_BGZIP": {
"tabix": "1.19.1"
},
"TABIX_BGZIPTABIX": {
"tabix": "1.19.1"
},
Expand Down Expand Up @@ -150,6 +150,8 @@
"indel/test1/benchmarks/sompy/test1.SEQC2.freebayes.features.csv",
"indel/test1/benchmarks/sompy/test1.SEQC2.freebayes.metrics.json",
"indel/test1/benchmarks/sompy/test1.SEQC2.freebayes.stats.csv",
"indel/test1/preprocess",
"indel/test1/preprocess/test1.filter.vcf",
"indel/test1/stats",
"indel/test1/stats/bcftools",
"indel/test1/stats/bcftools/test1.freebayes.bcftools_stats.txt",
Expand All @@ -161,6 +163,7 @@
"indel/test2/benchmarks/sompy/test2.SEQC2.strelka.stats.csv",
"indel/test2/preprocess",
"indel/test2/preprocess/HCC1395T_vs_HCC1395N.strelka.somatic_indels.sort.vcf.gz",
"indel/test2/preprocess/test2.filter.vcf",
"indel/test2/stats",
"indel/test2/stats/bcftools",
"indel/test2/stats/bcftools/test2.strelka.bcftools_stats.txt",
Expand All @@ -170,13 +173,13 @@
[
"SEQC2.bcftools_stats.txt:md5,e530daf4f6a4923f1cd85c51893d5747",
"test1.freebayes.bcftools_stats.txt:md5,c5025b5c6256c1d808badee73a7c220c",
"test2.strelka.bcftools_stats.txt:md5,ec553881bc70c786e8cec95192823634"
"test2.strelka.bcftools_stats.txt:md5,1e700076bd303ee079b23658485eb7d4"
]
],
"meta": {
"nf-test": "0.9.0",
"nextflow": "24.10.2"
"nf-test": "0.9.2",
"nextflow": "24.10.3"
},
"timestamp": "2024-12-10T11:27:48.141030523"
"timestamp": "2025-01-13T14:32:00.898226798"
}
}

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