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renew snapshot for liftover
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kubranarci committed Nov 29, 2024
1 parent 786b95c commit a00e84c
Showing 1 changed file with 103 additions and 2 deletions.
105 changes: 103 additions & 2 deletions tests/liftover_hg38.nf.test.snap
Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
{
"Params: --analysis 'germline' --variant_type 'small' --method 'happy,rtgtools' --liftover": {
"content": [
75,
85,
{
"BCFTOOLS_DEDUP": {
"bcftools": 1.18
@@ -57,6 +57,9 @@
"UCSC_LIFTOVER": {
"ucsc": 377
},
"VCF_TO_CSV": {
"python": "3.12.4"
},
"Workflow": {
"nf-core/variantbenchmarking": "v1.0dev"
}
@@ -100,8 +103,97 @@
"small/HG002/stats",
"small/HG002/stats/bcftools",
"small/HG002/stats/bcftools/HG002.bcftools_stats.txt",
"small/multiqc",
"small/multiqc/multiqc_data",
"small/multiqc/multiqc_data/bcftools-stats-subtypes.txt",
"small/multiqc/multiqc_data/bcftools_stats_indel-lengths.txt",
"small/multiqc/multiqc_data/bcftools_stats_variant_depths.txt",
"small/multiqc/multiqc_data/bcftools_stats_vqc_Count_Indels.txt",
"small/multiqc/multiqc_data/bcftools_stats_vqc_Count_SNP.txt",
"small/multiqc/multiqc_data/bcftools_stats_vqc_Count_Transitions.txt",
"small/multiqc/multiqc_data/bcftools_stats_vqc_Count_Transversions.txt",
"small/multiqc/multiqc_data/multiqc.log",
"small/multiqc/multiqc_data/multiqc_bcftools_stats.txt",
"small/multiqc/multiqc_data/multiqc_citations.txt",
"small/multiqc/multiqc_data/multiqc_data.json",
"small/multiqc/multiqc_data/multiqc_general_stats.txt",
"small/multiqc/multiqc_data/multiqc_software_versions.txt",
"small/multiqc/multiqc_data/multiqc_sources.txt",
"small/multiqc/multiqc_plots",
"small/multiqc/multiqc_plots/pdf",
"small/multiqc/multiqc_plots/pdf/bcftools-stats-subtypes-cnt.pdf",
"small/multiqc/multiqc_plots/pdf/bcftools-stats-subtypes-pct.pdf",
"small/multiqc/multiqc_plots/pdf/bcftools_stats_indel-lengths.pdf",
"small/multiqc/multiqc_plots/pdf/bcftools_stats_variant_depths.pdf",
"small/multiqc/multiqc_plots/pdf/bcftools_stats_vqc_Count_Indels.pdf",
"small/multiqc/multiqc_plots/pdf/bcftools_stats_vqc_Count_SNP.pdf",
"small/multiqc/multiqc_plots/pdf/bcftools_stats_vqc_Count_Transitions.pdf",
"small/multiqc/multiqc_plots/pdf/bcftools_stats_vqc_Count_Transversions.pdf",
"small/multiqc/multiqc_plots/pdf/general_stats_table.pdf",
"small/multiqc/multiqc_plots/png",
"small/multiqc/multiqc_plots/png/bcftools-stats-subtypes-cnt.png",
"small/multiqc/multiqc_plots/png/bcftools-stats-subtypes-pct.png",
"small/multiqc/multiqc_plots/png/bcftools_stats_indel-lengths.png",
"small/multiqc/multiqc_plots/png/bcftools_stats_variant_depths.png",
"small/multiqc/multiqc_plots/png/bcftools_stats_vqc_Count_Indels.png",
"small/multiqc/multiqc_plots/png/bcftools_stats_vqc_Count_SNP.png",
"small/multiqc/multiqc_plots/png/bcftools_stats_vqc_Count_Transitions.png",
"small/multiqc/multiqc_plots/png/bcftools_stats_vqc_Count_Transversions.png",
"small/multiqc/multiqc_plots/png/general_stats_table.png",
"small/multiqc/multiqc_plots/svg",
"small/multiqc/multiqc_plots/svg/bcftools-stats-subtypes-cnt.svg",
"small/multiqc/multiqc_plots/svg/bcftools-stats-subtypes-pct.svg",
"small/multiqc/multiqc_plots/svg/bcftools_stats_indel-lengths.svg",
"small/multiqc/multiqc_plots/svg/bcftools_stats_variant_depths.svg",
"small/multiqc/multiqc_plots/svg/bcftools_stats_vqc_Count_Indels.svg",
"small/multiqc/multiqc_plots/svg/bcftools_stats_vqc_Count_SNP.svg",
"small/multiqc/multiqc_plots/svg/bcftools_stats_vqc_Count_Transitions.svg",
"small/multiqc/multiqc_plots/svg/bcftools_stats_vqc_Count_Transversions.svg",
"small/multiqc/multiqc_plots/svg/general_stats_table.svg",
"small/multiqc/multiqc_report.html",
"small/summary",
"small/summary/comparisons",
"small/summary/comparisons/rtgtools.FN.csv",
"small/summary/comparisons/rtgtools.FP.csv",
"small/summary/comparisons/rtgtools.TP_base.csv",
"small/summary/comparisons/rtgtools.TP_comp.csv",
"small/summary/datavzrd",
"small/summary/datavzrd/happy",
"small/summary/datavzrd/happy/index.html",
"small/summary/datavzrd/happy/static",
"small/summary/datavzrd/happy/static/bootstrap-select.min.css",
"small/summary/datavzrd/happy/static/bootstrap-table-fixed-columns.min.css",
"small/summary/datavzrd/happy/static/bootstrap-table.min.css",
"small/summary/datavzrd/happy/static/bootstrap.min.css",
"small/summary/datavzrd/happy/static/bundle.js",
"small/summary/datavzrd/happy/static/datavzrd.css",
"small/summary/datavzrd/happy/test",
"small/summary/datavzrd/happy/test/config.js",
"small/summary/datavzrd/happy/test/data",
"small/summary/datavzrd/happy/test/data/data_1.js",
"small/summary/datavzrd/happy/test/functions.js",
"small/summary/datavzrd/happy/test/heatmap.js",
"small/summary/datavzrd/happy/test/index_1.html",
"small/summary/datavzrd/happy/test/plots",
"small/summary/datavzrd/happy/test/plots/plot_0.js",
"small/summary/datavzrd/happy/test/plots/plot_1.js",
"small/summary/datavzrd/happy/test/plots/plot_10.js",
"small/summary/datavzrd/happy/test/plots/plot_11.js",
"small/summary/datavzrd/happy/test/plots/plot_12.js",
"small/summary/datavzrd/happy/test/plots/plot_13.js",
"small/summary/datavzrd/happy/test/plots/plot_14.js",
"small/summary/datavzrd/happy/test/plots/plot_15.js",
"small/summary/datavzrd/happy/test/plots/plot_16.js",
"small/summary/datavzrd/happy/test/plots/plot_17.js",
"small/summary/datavzrd/happy/test/plots/plot_18.js",
"small/summary/datavzrd/happy/test/plots/plot_2.js",
"small/summary/datavzrd/happy/test/plots/plot_3.js",
"small/summary/datavzrd/happy/test/plots/plot_4.js",
"small/summary/datavzrd/happy/test/plots/plot_5.js",
"small/summary/datavzrd/happy/test/plots/plot_6.js",
"small/summary/datavzrd/happy/test/plots/plot_7.js",
"small/summary/datavzrd/happy/test/plots/plot_8.js",
"small/summary/datavzrd/happy/test/plots/plot_9.js",
"small/summary/datavzrd/rtgtools",
"small/summary/datavzrd/rtgtools/index.html",
"small/summary/datavzrd/rtgtools/static",
@@ -130,6 +222,15 @@
"small/summary/datavzrd/rtgtools/test/plots/plot_8.js",
"small/summary/datavzrd/versions.yml",
"small/summary/plots",
"small/summary/plots/happy",
"small/summary/plots/happy/INDEL_ALL_metric_by_tool_happy_mqc.png",
"small/summary/plots/happy/INDEL_ALL_variants_by_tool_happy_mqc.png",
"small/summary/plots/happy/INDEL_PASS_metric_by_tool_happy_mqc.png",
"small/summary/plots/happy/INDEL_PASS_variants_by_tool_happy_mqc.png",
"small/summary/plots/happy/SNP_ALL_metric_by_tool_happy_mqc.png",
"small/summary/plots/happy/SNP_ALL_variants_by_tool_happy_mqc.png",
"small/summary/plots/happy/SNP_PASS_metric_by_tool_happy_mqc.png",
"small/summary/plots/happy/SNP_PASS_variants_by_tool_happy_mqc.png",
"small/summary/plots/rtgtools",
"small/summary/plots/rtgtools/metric_by_tool_rtgtools_mqc.png",
"small/summary/plots/rtgtools/variants_by_tool_rtgtools_mqc.png",
@@ -250,7 +351,7 @@
"nf-test": "0.9.0",
"nextflow": "24.10.2"
},
"timestamp": "2024-11-28T16:26:36.118564689"
"timestamp": "2024-11-29T09:23:31.648065377"
},
"-stub": {
"content": [

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