Job ID = 14172090 SRX = SRX7628903 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16846178 spots for SRR10963265/SRR10963265.sra Written 16846178 spots for SRR10963265/SRR10963265.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172654 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:37:13 16846178 reads; of these: 16846178 (100.00%) were paired; of these: 1272711 (7.55%) aligned concordantly 0 times 11720333 (69.57%) aligned concordantly exactly 1 time 3853134 (22.87%) aligned concordantly >1 times ---- 1272711 pairs aligned concordantly 0 times; of these: 215557 (16.94%) aligned discordantly 1 time ---- 1057154 pairs aligned 0 times concordantly or discordantly; of these: 2114308 mates make up the pairs; of these: 1122795 (53.10%) aligned 0 times 543932 (25.73%) aligned exactly 1 time 447581 (21.17%) aligned >1 times 96.67% overall alignment rate Time searching: 00:37:14 Overall time: 00:37:14 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 16 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 548249 / 15776072 = 0.0348 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 14:55:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 11 Dec 2021 14:55:51: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:55:51: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:55:58: 1000000 INFO @ Sat, 11 Dec 2021 14:56:05: 2000000 INFO @ Sat, 11 Dec 2021 14:56:11: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 14:56:18: 4000000 INFO @ Sat, 11 Dec 2021 14:56:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 11 Dec 2021 14:56:20: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:56:20: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:56:25: 5000000 INFO @ Sat, 11 Dec 2021 14:56:27: 1000000 INFO @ Sat, 11 Dec 2021 14:56:32: 6000000 INFO @ Sat, 11 Dec 2021 14:56:34: 2000000 INFO @ Sat, 11 Dec 2021 14:56:39: 7000000 INFO @ Sat, 11 Dec 2021 14:56:41: 3000000 INFO @ Sat, 11 Dec 2021 14:56:46: 8000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 14:56:48: 4000000 INFO @ Sat, 11 Dec 2021 14:56:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 11 Dec 2021 14:56:50: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:56:50: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:56:53: 9000000 INFO @ Sat, 11 Dec 2021 14:56:56: 5000000 INFO @ Sat, 11 Dec 2021 14:56:59: 1000000 INFO @ Sat, 11 Dec 2021 14:57:01: 10000000 INFO @ Sat, 11 Dec 2021 14:57:03: 6000000 INFO @ Sat, 11 Dec 2021 14:57:08: 2000000 INFO @ Sat, 11 Dec 2021 14:57:08: 11000000 INFO @ Sat, 11 Dec 2021 14:57:10: 7000000 INFO @ Sat, 11 Dec 2021 14:57:15: 12000000 INFO @ Sat, 11 Dec 2021 14:57:17: 3000000 INFO @ Sat, 11 Dec 2021 14:57:18: 8000000 INFO @ Sat, 11 Dec 2021 14:57:23: 13000000 INFO @ Sat, 11 Dec 2021 14:57:25: 9000000 INFO @ Sat, 11 Dec 2021 14:57:26: 4000000 INFO @ Sat, 11 Dec 2021 14:57:31: 14000000 INFO @ Sat, 11 Dec 2021 14:57:33: 10000000 INFO @ Sat, 11 Dec 2021 14:57:35: 5000000 INFO @ Sat, 11 Dec 2021 14:57:38: 15000000 INFO @ Sat, 11 Dec 2021 14:57:40: 11000000 INFO @ Sat, 11 Dec 2021 14:57:43: 6000000 INFO @ Sat, 11 Dec 2021 14:57:45: 16000000 INFO @ Sat, 11 Dec 2021 14:57:47: 12000000 INFO @ Sat, 11 Dec 2021 14:57:52: 7000000 INFO @ Sat, 11 Dec 2021 14:57:53: 17000000 INFO @ Sat, 11 Dec 2021 14:57:55: 13000000 INFO @ Sat, 11 Dec 2021 14:58:01: 18000000 INFO @ Sat, 11 Dec 2021 14:58:01: 8000000 INFO @ Sat, 11 Dec 2021 14:58:02: 14000000 INFO @ Sat, 11 Dec 2021 14:58:08: 19000000 INFO @ Sat, 11 Dec 2021 14:58:10: 9000000 INFO @ Sat, 11 Dec 2021 14:58:10: 15000000 INFO @ Sat, 11 Dec 2021 14:58:16: 20000000 INFO @ Sat, 11 Dec 2021 14:58:18: 16000000 INFO @ Sat, 11 Dec 2021 14:58:19: 10000000 INFO @ Sat, 11 Dec 2021 14:58:23: 21000000 INFO @ Sat, 11 Dec 2021 14:58:25: 17000000 INFO @ Sat, 11 Dec 2021 14:58:28: 11000000 INFO @ Sat, 11 Dec 2021 14:58:30: 22000000 INFO @ Sat, 11 Dec 2021 14:58:32: 18000000 INFO @ Sat, 11 Dec 2021 14:58:37: 12000000 INFO @ Sat, 11 Dec 2021 14:58:38: 23000000 INFO @ Sat, 11 Dec 2021 14:58:40: 19000000 INFO @ Sat, 11 Dec 2021 14:58:45: 24000000 INFO @ Sat, 11 Dec 2021 14:58:47: 13000000 INFO @ Sat, 11 Dec 2021 14:58:47: 20000000 INFO @ Sat, 11 Dec 2021 14:58:53: 25000000 INFO @ Sat, 11 Dec 2021 14:58:55: 21000000 INFO @ Sat, 11 Dec 2021 14:58:56: 14000000 INFO @ Sat, 11 Dec 2021 14:59:00: 26000000 INFO @ Sat, 11 Dec 2021 14:59:02: 22000000 INFO @ Sat, 11 Dec 2021 14:59:05: 15000000 INFO @ Sat, 11 Dec 2021 14:59:08: 27000000 INFO @ Sat, 11 Dec 2021 14:59:10: 23000000 INFO @ Sat, 11 Dec 2021 14:59:14: 16000000 INFO @ Sat, 11 Dec 2021 14:59:16: 28000000 INFO @ Sat, 11 Dec 2021 14:59:17: 24000000 INFO @ Sat, 11 Dec 2021 14:59:23: 17000000 INFO @ Sat, 11 Dec 2021 14:59:23: 29000000 INFO @ Sat, 11 Dec 2021 14:59:25: 25000000 INFO @ Sat, 11 Dec 2021 14:59:31: 30000000 INFO @ Sat, 11 Dec 2021 14:59:32: 26000000 INFO @ Sat, 11 Dec 2021 14:59:33: 18000000 INFO @ Sat, 11 Dec 2021 14:59:38: 31000000 INFO @ Sat, 11 Dec 2021 14:59:40: 27000000 INFO @ Sat, 11 Dec 2021 14:59:41: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 14:59:41: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 14:59:41: #1 total tags in treatment: 15027735 INFO @ Sat, 11 Dec 2021 14:59:41: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:59:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 14:59:42: #1 tags after filtering in treatment: 13919106 INFO @ Sat, 11 Dec 2021 14:59:42: #1 Redundant rate of treatment: 0.07 INFO @ Sat, 11 Dec 2021 14:59:42: #1 finished! INFO @ Sat, 11 Dec 2021 14:59:42: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:59:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:59:42: 19000000 INFO @ Sat, 11 Dec 2021 14:59:43: #2 number of paired peaks: 1620 INFO @ Sat, 11 Dec 2021 14:59:43: start model_add_line... INFO @ Sat, 11 Dec 2021 14:59:43: start X-correlation... INFO @ Sat, 11 Dec 2021 14:59:43: end of X-cor INFO @ Sat, 11 Dec 2021 14:59:43: #2 finished! INFO @ Sat, 11 Dec 2021 14:59:43: #2 predicted fragment length is 202 bps INFO @ Sat, 11 Dec 2021 14:59:43: #2 alternative fragment length(s) may be 4,202 bps INFO @ Sat, 11 Dec 2021 14:59:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.05_model.r INFO @ Sat, 11 Dec 2021 14:59:43: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:59:43: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 14:59:47: 28000000 INFO @ Sat, 11 Dec 2021 14:59:51: 20000000 INFO @ Sat, 11 Dec 2021 14:59:54: 29000000 INFO @ Sat, 11 Dec 2021 14:59:59: 21000000 INFO @ Sat, 11 Dec 2021 15:00:00: 30000000 INFO @ Sat, 11 Dec 2021 15:00:07: 31000000 INFO @ Sat, 11 Dec 2021 15:00:08: 22000000 INFO @ Sat, 11 Dec 2021 15:00:10: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:00:10: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:00:10: #1 total tags in treatment: 15027735 INFO @ Sat, 11 Dec 2021 15:00:10: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:00:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:00:11: #1 tags after filtering in treatment: 13919106 INFO @ Sat, 11 Dec 2021 15:00:11: #1 Redundant rate of treatment: 0.07 INFO @ Sat, 11 Dec 2021 15:00:11: #1 finished! INFO @ Sat, 11 Dec 2021 15:00:11: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:00:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:00:12: #2 number of paired peaks: 1620 INFO @ Sat, 11 Dec 2021 15:00:12: start model_add_line... INFO @ Sat, 11 Dec 2021 15:00:12: start X-correlation... INFO @ Sat, 11 Dec 2021 15:00:12: end of X-cor INFO @ Sat, 11 Dec 2021 15:00:12: #2 finished! INFO @ Sat, 11 Dec 2021 15:00:12: #2 predicted fragment length is 202 bps INFO @ Sat, 11 Dec 2021 15:00:12: #2 alternative fragment length(s) may be 4,202 bps INFO @ Sat, 11 Dec 2021 15:00:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.10_model.r INFO @ Sat, 11 Dec 2021 15:00:12: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:00:12: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:00:17: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:00:18: 23000000 INFO @ Sat, 11 Dec 2021 15:00:27: 24000000 INFO @ Sat, 11 Dec 2021 15:00:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:00:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:00:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.05_summits.bed INFO @ Sat, 11 Dec 2021 15:00:32: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2167 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:00:37: 25000000 INFO @ Sat, 11 Dec 2021 15:00:45: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:00:46: 26000000 INFO @ Sat, 11 Dec 2021 15:00:55: 27000000 INFO @ Sat, 11 Dec 2021 15:01:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:01:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:01:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.10_summits.bed INFO @ Sat, 11 Dec 2021 15:01:00: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (1453 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:01:04: 28000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:01:12: 29000000 INFO @ Sat, 11 Dec 2021 15:01:21: 30000000 INFO @ Sat, 11 Dec 2021 15:01:30: 31000000 INFO @ Sat, 11 Dec 2021 15:01:34: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:01:34: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:01:34: #1 total tags in treatment: 15027735 INFO @ Sat, 11 Dec 2021 15:01:34: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:01:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:01:34: #1 tags after filtering in treatment: 13919106 INFO @ Sat, 11 Dec 2021 15:01:34: #1 Redundant rate of treatment: 0.07 INFO @ Sat, 11 Dec 2021 15:01:34: #1 finished! INFO @ Sat, 11 Dec 2021 15:01:34: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:01:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:01:35: #2 number of paired peaks: 1620 INFO @ Sat, 11 Dec 2021 15:01:35: start model_add_line... INFO @ Sat, 11 Dec 2021 15:01:36: start X-correlation... INFO @ Sat, 11 Dec 2021 15:01:36: end of X-cor INFO @ Sat, 11 Dec 2021 15:01:36: #2 finished! INFO @ Sat, 11 Dec 2021 15:01:36: #2 predicted fragment length is 202 bps INFO @ Sat, 11 Dec 2021 15:01:36: #2 alternative fragment length(s) may be 4,202 bps INFO @ Sat, 11 Dec 2021 15:01:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.20_model.r INFO @ Sat, 11 Dec 2021 15:01:36: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:01:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:02:09: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:02:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:02:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:02:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628903/SRX7628903.20_summits.bed INFO @ Sat, 11 Dec 2021 15:02:25: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (885 records, 4 fields): 4 millis CompletedMACS2peakCalling