From f594238f3abfaf4521d760f5c4d529d96ca76122 Mon Sep 17 00:00:00 2001
From: Tobias Marschall <tobias.marschall@0ohm.net>
Date: Thu, 1 Nov 2018 12:18:32 +0100
Subject: [PATCH] Cleanup wrt requested parameter combinations
---
Snakefile | 30 ++++--------------------------
1 file changed, 4 insertions(+), 26 deletions(-)
diff --git a/Snakefile b/Snakefile
index 49681bc..ae5d6ff 100644
--- a/Snakefile
+++ b/Snakefile
@@ -33,38 +33,16 @@ import os.path
METHODS = [
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0_regfactor6_filterFALSE",
"simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.005_regfactor6_filterFALSE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.01_regfactor6_filterFALSE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.02_regfactor6_filterFALSE",
- "simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.03_regfactor6_filterFALSE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.04_regfactor6_filterFALSE",
- "simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.05_regfactor6_filterFALSE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0_regfactor6_filterFALSE",
- "simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.005_regfactor6_filterFALSE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.01_regfactor6_filterFALSE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.02_regfactor6_filterFALSE",
- "simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.03_regfactor6_filterFALSE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.04_regfactor6_filterFALSE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.05_regfactor6_filterFALSE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0_regfactor6_filterTRUE",
"simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.005_regfactor6_filterTRUE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.01_regfactor6_filterTRUE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.02_regfactor6_filterTRUE",
- "simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.03_regfactor6_filterTRUE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.04_regfactor6_filterTRUE",
- "simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.05_regfactor6_filterTRUE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0_regfactor6_filterTRUE",
+ "simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.005_regfactor6_filterFALSE",
"simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.005_regfactor6_filterTRUE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.01_regfactor6_filterTRUE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.02_regfactor6_filterTRUE",
- "simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.03_regfactor6_filterTRUE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.04_regfactor6_filterTRUE",
- #"simpleCalls_llr4_poppriorsTRUE_haplotagsTRUE_gtcutoff0.05_regfactor6_filterTRUE",
+ "simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.05_regfactor6_filterFALSE",
+ "simpleCalls_llr4_poppriorsTRUE_haplotagsFALSE_gtcutoff0.05_regfactor6_filterTRUE",
]
BPDENS = [
- "selected_j{}_s{}_scedist{}".format(joint, single, scedist) for joint in [0.1] for single in [0.5] for scedist in [5,20]
+ "selected_j{}_s{}_scedist{}".format(joint, single, scedist) for joint in [0.1] for single in [0.5] for scedist in [20]
]
singularity: "docker://smei/mosaicatcher-pipeline:v0.1"
--
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