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Commit b1994783 authored by Mathieu Charles's avatar Mathieu Charles
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jupyter for concatenate detection

parent 6afd34d5
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......@@ -19,7 +19,7 @@ from subprocess import run
TOOLS = ["lumpy", "delly", "pindel", "genomestrip"]
VTYPES = ["DEL", "INV", "DUP", "mCNV"]
MIN_CHR_SIZE = 50000
MIN_CHR_SIZE = 500000
MD5_TEST = {
"ERR470101_f_1.fq.gz": "2c30600e303c9bfb7b9538ec76055203",
......
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......@@ -513,9 +513,9 @@ class MergeBatches(Detection):
chrom=self.chromosomes,
svtype=[x for x in self.varianttypes if x != "mCNV"])
concat = expand("results/{svtype}/concat_{svtype}_final.vcf.gz", svtype=[x for x in self.varianttypes if x != "mCNV"])
#jupyter = ["results/detection_summary.html"]
jupyter = ["results/detection_summary.html"]
return outputs + concat # + jupyter
return outputs + concat + jupyter
return outputs
......
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