From 304e0890af69273eeb20835f3b0de1f3c421bf8c Mon Sep 17 00:00:00 2001
From: aknecht2 <aknecht2@unl.edu>
Date: Thu, 4 May 2017 12:40:28 -0500
Subject: [PATCH] A start...

---
 chipathlon/jobs/params/bedtools_bam_to_bed.yaml        | 2 +-
 chipathlon/jobs/params/bowtie2_align_paired.yaml       | 4 ++--
 chipathlon/jobs/params/bowtie2_align_single.yaml       | 4 ++--
 chipathlon/jobs/params/bwa_align_paired.yaml           | 2 +-
 chipathlon/jobs/params/bwa_align_single.yaml           | 2 +-
 chipathlon/jobs/params/cat_awk_sort_peaks.yaml         | 2 +-
 chipathlon/jobs/params/ccat_callpeak.yaml              | 2 +-
 chipathlon/jobs/params/chr_locus_convert.yaml          | 2 +-
 chipathlon/jobs/params/cp.yaml                         | 2 +-
 chipathlon/jobs/params/db_save_result.yaml             | 4 ++--
 chipathlon/jobs/params/download_from_encode.yaml       | 2 +-
 chipathlon/jobs/params/download_from_gridfs.yaml       | 2 +-
 chipathlon/jobs/params/gem_callpeak.yaml               | 2 +-
 chipathlon/jobs/params/idr.yaml                        | 4 ++--
 chipathlon/jobs/params/macs2_broad.yaml                | 4 ++--
 chipathlon/jobs/params/macs2_narrow.yaml               | 4 ++--
 chipathlon/jobs/params/music_broad.yaml                | 2 +-
 chipathlon/jobs/params/music_narrow.yaml               | 2 +-
 chipathlon/jobs/params/music_punctate.yaml             | 2 +-
 chipathlon/jobs/params/peakranger_callpeak.yaml        | 4 ++--
 chipathlon/jobs/params/peakranger_format_bed.yaml      | 2 +-
 chipathlon/jobs/params/picard_clean_sam.yaml           | 2 +-
 chipathlon/jobs/params/picard_mark_duplicates.yaml     | 2 +-
 chipathlon/jobs/params/picard_sort_sam.yaml            | 2 +-
 chipathlon/jobs/params/samtools_filter_bam.yaml        | 2 +-
 chipathlon/jobs/params/samtools_remove_duplicates.yaml | 2 +-
 chipathlon/jobs/params/samtools_sam_to_bam.yaml        | 2 +-
 chipathlon/jobs/params/sort_awk_sort_peaks.yaml        | 2 +-
 chipathlon/jobs/params/spp_nodups_broad.yaml           | 2 +-
 chipathlon/jobs/params/spp_nodups_narrow.yaml          | 2 +-
 chipathlon/jobs/params/zcat_awk_sort_peaks.yaml        | 2 +-
 31 files changed, 38 insertions(+), 38 deletions(-)

diff --git a/chipathlon/jobs/params/bedtools_bam_to_bed.yaml b/chipathlon/jobs/params/bedtools_bam_to_bed.yaml
index 32c67a0..a0eaf3e 100644
--- a/chipathlon/jobs/params/bedtools_bam_to_bed.yaml
+++ b/chipathlon/jobs/params/bedtools_bam_to_bed.yaml
@@ -21,7 +21,7 @@ bedtools_bam_to_bed:
         required: true
         has_value: true
         default:  $inputs.0
-  walltime: 2000
+  walltime: 60
   memory: 2000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/bowtie2_align_paired.yaml b/chipathlon/jobs/params/bowtie2_align_paired.yaml
index 342f129..432fa58 100644
--- a/chipathlon/jobs/params/bowtie2_align_paired.yaml
+++ b/chipathlon/jobs/params/bowtie2_align_paired.yaml
@@ -78,7 +78,7 @@ bowtie2_align_paired:
         required: false
         has_value: true
         default: 8
-  walltime: 2000
-  memory: 2000
+  walltime: 1440
+  memory: 8000
   cores: 8
   nodes: 1
diff --git a/chipathlon/jobs/params/bowtie2_align_single.yaml b/chipathlon/jobs/params/bowtie2_align_single.yaml
index 7e30a3e..e40ef86 100644
--- a/chipathlon/jobs/params/bowtie2_align_single.yaml
+++ b/chipathlon/jobs/params/bowtie2_align_single.yaml
@@ -68,7 +68,7 @@ bowtie2_align_single:
         required: false
         has_value: true
         default: 8
-  walltime: 2000
-  memory: 2000
+  walltime: 1440
+  memory: 8000
   cores: 8
   nodes: 1
diff --git a/chipathlon/jobs/params/bwa_align_paired.yaml b/chipathlon/jobs/params/bwa_align_paired.yaml
index 2e479e6..d76a020 100644
--- a/chipathlon/jobs/params/bwa_align_paired.yaml
+++ b/chipathlon/jobs/params/bwa_align_paired.yaml
@@ -68,7 +68,7 @@ bwa_align_paired:
         changeable: false
         required: true
         has_value: false
-  walltime: 960
+  walltime: 1440
   memory: 16000
   cores: 8
   nodes: 1
diff --git a/chipathlon/jobs/params/bwa_align_single.yaml b/chipathlon/jobs/params/bwa_align_single.yaml
index ddbe95d..02c03a3 100644
--- a/chipathlon/jobs/params/bwa_align_single.yaml
+++ b/chipathlon/jobs/params/bwa_align_single.yaml
@@ -78,7 +78,7 @@ bwa_align_single:
         changeable: false
         required: true
         has_value: false
-  walltime: 960
+  walltime: 1440
   memory: 16000
   cores: 8
   nodes: 1
diff --git a/chipathlon/jobs/params/cat_awk_sort_peaks.yaml b/chipathlon/jobs/params/cat_awk_sort_peaks.yaml
index 3cdd1f6..5d2f965 100644
--- a/chipathlon/jobs/params/cat_awk_sort_peaks.yaml
+++ b/chipathlon/jobs/params/cat_awk_sort_peaks.yaml
@@ -20,7 +20,7 @@ cat_awk_sort_peaks:
         changeable: false
         required: true
         has_value: false
-  walltime: 2000
+  walltime: 10
   memory: 2000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/ccat_callpeak.yaml b/chipathlon/jobs/params/ccat_callpeak.yaml
index 354ed46..8c8a39f 100644
--- a/chipathlon/jobs/params/ccat_callpeak.yaml
+++ b/chipathlon/jobs/params/ccat_callpeak.yaml
@@ -65,7 +65,7 @@ ccat_callpeak:
         changeable: false
         required: true
         has_value: false
-  walltime: 120
+  walltime: 60
   memory: 16000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/chr_locus_convert.yaml b/chipathlon/jobs/params/chr_locus_convert.yaml
index 73fa9ce..dc13307 100644
--- a/chipathlon/jobs/params/chr_locus_convert.yaml
+++ b/chipathlon/jobs/params/chr_locus_convert.yaml
@@ -27,7 +27,7 @@ chr_locus_convert:
         changeable: false
         required: true
         has_value: false
-  walltime: 120
+  walltime: 60
   memory: 8000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/cp.yaml b/chipathlon/jobs/params/cp.yaml
index f25b6ef..3b50d68 100644
--- a/chipathlon/jobs/params/cp.yaml
+++ b/chipathlon/jobs/params/cp.yaml
@@ -20,7 +20,7 @@ cp:
         changeable: false
         required: true
         has_value: false
-  walltime: 2000
+  walltime: 10
   memory: 2000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/db_save_result.yaml b/chipathlon/jobs/params/db_save_result.yaml
index a6d5354..be166a7 100644
--- a/chipathlon/jobs/params/db_save_result.yaml
+++ b/chipathlon/jobs/params/db_save_result.yaml
@@ -50,7 +50,7 @@ db_save_result:
         required: true
         has_value: true
         default: $inputs.4
-  walltime: 2000
-  memory: 16000
+  walltime: 20
+  memory: 2000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/download_from_encode.yaml b/chipathlon/jobs/params/download_from_encode.yaml
index 95ff205..be8311a 100644
--- a/chipathlon/jobs/params/download_from_encode.yaml
+++ b/chipathlon/jobs/params/download_from_encode.yaml
@@ -30,7 +30,7 @@ download_from_encode:
         required: true
         has_value: true
         default: $outputs.0
-  walltime: 360
+  walltime: 60
   memory: 2000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/download_from_gridfs.yaml b/chipathlon/jobs/params/download_from_gridfs.yaml
index 3638fa7..1c25a44 100644
--- a/chipathlon/jobs/params/download_from_gridfs.yaml
+++ b/chipathlon/jobs/params/download_from_gridfs.yaml
@@ -49,6 +49,6 @@ download_from_gridfs:
         has_value: true
         default: $outputs.0
   walltime: 60
-  memory: 8000
+  memory: 2000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/gem_callpeak.yaml b/chipathlon/jobs/params/gem_callpeak.yaml
index 90973e1..ef52ca8 100644
--- a/chipathlon/jobs/params/gem_callpeak.yaml
+++ b/chipathlon/jobs/params/gem_callpeak.yaml
@@ -119,7 +119,7 @@ gem_callpeak:
         required: true
         has_value: true
         default: 4
-  walltime: 720
+  walltime: 780
   memory: 16000
   cores: 8
   nodes: 1
diff --git a/chipathlon/jobs/params/idr.yaml b/chipathlon/jobs/params/idr.yaml
index 0d0edcd..cd3be1f 100644
--- a/chipathlon/jobs/params/idr.yaml
+++ b/chipathlon/jobs/params/idr.yaml
@@ -40,7 +40,7 @@ idr:
         required: true
         has_value: true
         default: $outputs.0
-  walltime: 2000
-  memory: 16000
+  walltime: 600
+  memory: 8000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/macs2_broad.yaml b/chipathlon/jobs/params/macs2_broad.yaml
index 5f79d9f..e2961b8 100644
--- a/chipathlon/jobs/params/macs2_broad.yaml
+++ b/chipathlon/jobs/params/macs2_broad.yaml
@@ -99,7 +99,7 @@ macs2_broad:
         required: true
         has_value: true
         default: 0.1
-  walltime: 480
-  memory: 16000
+  walltime: 120
+  memory: 8000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/macs2_narrow.yaml b/chipathlon/jobs/params/macs2_narrow.yaml
index 175c8e5..9a04a88 100644
--- a/chipathlon/jobs/params/macs2_narrow.yaml
+++ b/chipathlon/jobs/params/macs2_narrow.yaml
@@ -88,7 +88,7 @@ macs2_narrow:
         changeable: false
         required: true
         has_value: false
-  walltime: 480
-  memory: 16000
+  walltime: 120
+  memory: 8000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/music_broad.yaml b/chipathlon/jobs/params/music_broad.yaml
index de47c09..b30eec6 100644
--- a/chipathlon/jobs/params/music_broad.yaml
+++ b/chipathlon/jobs/params/music_broad.yaml
@@ -80,6 +80,6 @@ music_broad:
         has_value: true
         default: 50
   walltime: 240
-  memory: 16000
+  memory: 8000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/music_narrow.yaml b/chipathlon/jobs/params/music_narrow.yaml
index c58c6e5..de7b8cc 100644
--- a/chipathlon/jobs/params/music_narrow.yaml
+++ b/chipathlon/jobs/params/music_narrow.yaml
@@ -64,6 +64,6 @@ music_narrow:
         has_value: true
         default: 50
   walltime: 240
-  memory: 16000
+  memory: 8000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/music_punctate.yaml b/chipathlon/jobs/params/music_punctate.yaml
index 4e0bf45..b3a6cbc 100644
--- a/chipathlon/jobs/params/music_punctate.yaml
+++ b/chipathlon/jobs/params/music_punctate.yaml
@@ -84,6 +84,6 @@ music_punctate:
         has_value: true
         default: 50
   walltime: 240
-  memory: 16000
+  memory: 8000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/peakranger_callpeak.yaml b/chipathlon/jobs/params/peakranger_callpeak.yaml
index bab46e1..6eec39f 100644
--- a/chipathlon/jobs/params/peakranger_callpeak.yaml
+++ b/chipathlon/jobs/params/peakranger_callpeak.yaml
@@ -99,7 +99,7 @@ peakranger_callpeak:
         required: true
         has_value: true
         default: 4
-  walltime: 480
-  memory: 32000
+  walltime: 120
+  memory: 4000
   cores: 4
   nodes: 1
diff --git a/chipathlon/jobs/params/peakranger_format_bed.yaml b/chipathlon/jobs/params/peakranger_format_bed.yaml
index 094e9e0..734afb9 100644
--- a/chipathlon/jobs/params/peakranger_format_bed.yaml
+++ b/chipathlon/jobs/params/peakranger_format_bed.yaml
@@ -23,6 +23,6 @@ peakranger_format_bed:
         has_value: true
         default: $outputs.0
   walltime: 60
-  memory: 8000
+  memory: 4000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/picard_clean_sam.yaml b/chipathlon/jobs/params/picard_clean_sam.yaml
index 9ef45a1..b81793f 100644
--- a/chipathlon/jobs/params/picard_clean_sam.yaml
+++ b/chipathlon/jobs/params/picard_clean_sam.yaml
@@ -28,6 +28,6 @@ picard_clean_sam:
         has_value: true
         default: $outputs.0
   walltime: 60
-  memory: 8000
+  memory: 4000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/picard_mark_duplicates.yaml b/chipathlon/jobs/params/picard_mark_duplicates.yaml
index cb0a758..336712e 100644
--- a/chipathlon/jobs/params/picard_mark_duplicates.yaml
+++ b/chipathlon/jobs/params/picard_mark_duplicates.yaml
@@ -55,7 +55,7 @@ picard_mark_duplicates:
         required: true
         has_value: true
         default: true
-  walltime: 2000
+  walltime: 720
   memory: 8000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/picard_sort_sam.yaml b/chipathlon/jobs/params/picard_sort_sam.yaml
index ce6e21e..83ff014 100644
--- a/chipathlon/jobs/params/picard_sort_sam.yaml
+++ b/chipathlon/jobs/params/picard_sort_sam.yaml
@@ -33,7 +33,7 @@ picard_sort_sam:
         required: true
         has_value: true
         default: "coordinate"
-  walltime: 2000
+  walltime: 720
   memory: 8000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/samtools_filter_bam.yaml b/chipathlon/jobs/params/samtools_filter_bam.yaml
index 82e716a..9bb32c5 100644
--- a/chipathlon/jobs/params/samtools_filter_bam.yaml
+++ b/chipathlon/jobs/params/samtools_filter_bam.yaml
@@ -43,7 +43,7 @@ samtools_filter_bam:
         changeable: false
         required: true
         has_value: false
-  walltime: 2000
+  walltime: 60
   memory: 2000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/samtools_remove_duplicates.yaml b/chipathlon/jobs/params/samtools_remove_duplicates.yaml
index a8b739a..63a2e25 100644
--- a/chipathlon/jobs/params/samtools_remove_duplicates.yaml
+++ b/chipathlon/jobs/params/samtools_remove_duplicates.yaml
@@ -37,7 +37,7 @@ samtools_remove_duplicates:
         changeable: false
         required: true
         has_value: false
-  walltime: 2000
+  walltime: 60
   memory: 2000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/samtools_sam_to_bam.yaml b/chipathlon/jobs/params/samtools_sam_to_bam.yaml
index 086735b..1612f1a 100644
--- a/chipathlon/jobs/params/samtools_sam_to_bam.yaml
+++ b/chipathlon/jobs/params/samtools_sam_to_bam.yaml
@@ -31,7 +31,7 @@ samtools_sam_to_bam:
         changeable: false
         required: true
         has_value: false
-  walltime: 2000
+  walltime: 30
   memory: 2000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/sort_awk_sort_peaks.yaml b/chipathlon/jobs/params/sort_awk_sort_peaks.yaml
index 9b1b5de..0b8608d 100644
--- a/chipathlon/jobs/params/sort_awk_sort_peaks.yaml
+++ b/chipathlon/jobs/params/sort_awk_sort_peaks.yaml
@@ -20,7 +20,7 @@ sort_awk_sort_peaks:
         changeable: false
         required: true
         has_value: false
-  walltime: 60
+  walltime: 30
   memory: 4000
   cores: 1
   nodes: 1
diff --git a/chipathlon/jobs/params/spp_nodups_broad.yaml b/chipathlon/jobs/params/spp_nodups_broad.yaml
index 8bc3e48..ae2baa4 100644
--- a/chipathlon/jobs/params/spp_nodups_broad.yaml
+++ b/chipathlon/jobs/params/spp_nodups_broad.yaml
@@ -87,7 +87,7 @@ spp_nodups_broad:
         changeable: false
         required: true
         has_value: false
-  walltime: 2000
+  walltime: 5760
   memory: 16000
   cores: 8
   nodes: 1
diff --git a/chipathlon/jobs/params/spp_nodups_narrow.yaml b/chipathlon/jobs/params/spp_nodups_narrow.yaml
index c4e94f7..1e8e657 100644
--- a/chipathlon/jobs/params/spp_nodups_narrow.yaml
+++ b/chipathlon/jobs/params/spp_nodups_narrow.yaml
@@ -87,7 +87,7 @@ spp_nodups_narrow:
         changeable: false
         required: true
         has_value: false
-  walltime: 2000
+  walltime: 5760
   memory: 16000
   cores: 8
   nodes: 1
diff --git a/chipathlon/jobs/params/zcat_awk_sort_peaks.yaml b/chipathlon/jobs/params/zcat_awk_sort_peaks.yaml
index ce2d88d..925353f 100644
--- a/chipathlon/jobs/params/zcat_awk_sort_peaks.yaml
+++ b/chipathlon/jobs/params/zcat_awk_sort_peaks.yaml
@@ -20,7 +20,7 @@ zcat_awk_sort_peaks:
         changeable: false
         required: true
         has_value: false
-  walltime: 2000
+  walltime: 30
   memory: 2000
   cores: 1
   nodes: 1
-- 
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