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Holland Computing Center
chipathlon
Commits
c16792e0
Commit
c16792e0
authored
Sep 19, 2016
by
aknecht2
Browse files
Updated config to add necessary file types for ccat.
parent
9cc3add1
Changes
1
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chipathlon/conf.py
View file @
c16792e0
...
...
@@ -28,12 +28,13 @@ align_tools = [
"bowtie2"
]
# Current peak calli
g
n tools
# Current peak callin
g
tools
peak_tools
=
[
"spp"
,
"macs2"
,
"gem"
,
"jamm"
"jamm"
,
"ccat"
]
# File extensions
...
...
@@ -43,7 +44,7 @@ file_extensions = {
"sai"
:
[
"sai"
],
"sam"
:
[
"sam"
],
"bam"
:
[
"bam"
],
"bed"
:
[
"bed"
,
"narrowPeak"
,
"broadPeak"
,
"tagAlign"
,
"narrowPeak.gz"
],
"bed"
:
[
"bed"
,
"peak"
,
"region"
,
"narrowPeak"
,
"broadPeak"
,
"tagAlign"
,
"narrowPeak.gz"
],
"bwa_genome"
:
[
"amb"
,
"ann"
,
"bwt"
,
"pac"
,
"sa"
],
"bowtie2_genome"
:
[
"1.bt2"
,
"2.bt2"
,
"3.bt2"
,
"4.bt2"
,
"rev.1.bt2"
,
"rev.2.bt2"
],
"quality"
:
[
"quality"
],
...
...
@@ -56,7 +57,9 @@ file_extensions = {
"txt"
:
[
"txt"
],
"chrom_sizes"
:
[
"sizes"
],
"read_dist"
:
[
"txt"
],
"plaintext"
:
[
"txt"
,
"md"
]
"plaintext"
:
[
"txt"
,
"md"
],
"ccat_conf"
:
[
"txt"
,
"conf"
],
"log"
:
[
"log"
]
}
# list of resources that can be specified per job (step) in
...
...
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