Job ID = 14172129 SRX = SRX7628913 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 24448389 spots for SRR10963275/SRR10963275.sra Written 24448389 spots for SRR10963275/SRR10963275.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172795 ("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: 00:46:41 24448389 reads; of these: 24448389 (100.00%) were paired; of these: 1646896 (6.74%) aligned concordantly 0 times 14807118 (60.56%) aligned concordantly exactly 1 time 7994375 (32.70%) aligned concordantly >1 times ---- 1646896 pairs aligned concordantly 0 times; of these: 124705 (7.57%) aligned discordantly 1 time ---- 1522191 pairs aligned 0 times concordantly or discordantly; of these: 3044382 mates make up the pairs; of these: 2025615 (66.54%) aligned 0 times 578277 (18.99%) aligned exactly 1 time 440490 (14.47%) aligned >1 times 95.86% overall alignment rate Time searching: 00:46:41 Overall time: 00:46:41 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 20 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] 1667370 / 22852398 = 0.0730 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 15:21:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.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 15:21:11: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:21:11: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:21:16: 1000000 INFO @ Sat, 11 Dec 2021 15:21:21: 2000000 INFO @ Sat, 11 Dec 2021 15:21:26: 3000000 INFO @ Sat, 11 Dec 2021 15:21:31: 4000000 INFO @ Sat, 11 Dec 2021 15:21:36: 5000000 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 15:21:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.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 15:21:41: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:21:41: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:21:41: 6000000 INFO @ Sat, 11 Dec 2021 15:21:48: 7000000 INFO @ Sat, 11 Dec 2021 15:21:48: 1000000 INFO @ Sat, 11 Dec 2021 15:21:54: 8000000 INFO @ Sat, 11 Dec 2021 15:21:55: 2000000 INFO @ Sat, 11 Dec 2021 15:22:01: 9000000 INFO @ Sat, 11 Dec 2021 15:22:03: 3000000 INFO @ Sat, 11 Dec 2021 15:22:07: 10000000 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 15:22:10: 4000000 INFO @ Sat, 11 Dec 2021 15:22:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.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 15:22:11: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:22:11: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:22:13: 11000000 INFO @ Sat, 11 Dec 2021 15:22:17: 5000000 INFO @ Sat, 11 Dec 2021 15:22:18: 1000000 INFO @ Sat, 11 Dec 2021 15:22:20: 12000000 INFO @ Sat, 11 Dec 2021 15:22:25: 2000000 INFO @ Sat, 11 Dec 2021 15:22:25: 6000000 INFO @ Sat, 11 Dec 2021 15:22:27: 13000000 INFO @ Sat, 11 Dec 2021 15:22:31: 3000000 INFO @ Sat, 11 Dec 2021 15:22:32: 7000000 INFO @ Sat, 11 Dec 2021 15:22:34: 14000000 INFO @ Sat, 11 Dec 2021 15:22:38: 4000000 INFO @ Sat, 11 Dec 2021 15:22:40: 8000000 INFO @ Sat, 11 Dec 2021 15:22:41: 15000000 INFO @ Sat, 11 Dec 2021 15:22:45: 5000000 INFO @ Sat, 11 Dec 2021 15:22:47: 9000000 INFO @ Sat, 11 Dec 2021 15:22:48: 16000000 INFO @ Sat, 11 Dec 2021 15:22:52: 6000000 INFO @ Sat, 11 Dec 2021 15:22:54: 17000000 INFO @ Sat, 11 Dec 2021 15:22:55: 10000000 INFO @ Sat, 11 Dec 2021 15:22:59: 7000000 INFO @ Sat, 11 Dec 2021 15:23:01: 18000000 INFO @ Sat, 11 Dec 2021 15:23:02: 11000000 INFO @ Sat, 11 Dec 2021 15:23:06: 8000000 INFO @ Sat, 11 Dec 2021 15:23:08: 19000000 INFO @ Sat, 11 Dec 2021 15:23:10: 12000000 INFO @ Sat, 11 Dec 2021 15:23:12: 9000000 INFO @ Sat, 11 Dec 2021 15:23:15: 20000000 INFO @ Sat, 11 Dec 2021 15:23:17: 13000000 INFO @ Sat, 11 Dec 2021 15:23:19: 10000000 INFO @ Sat, 11 Dec 2021 15:23:22: 21000000 INFO @ Sat, 11 Dec 2021 15:23:25: 14000000 INFO @ Sat, 11 Dec 2021 15:23:26: 11000000 INFO @ Sat, 11 Dec 2021 15:23:29: 22000000 INFO @ Sat, 11 Dec 2021 15:23:32: 15000000 INFO @ Sat, 11 Dec 2021 15:23:33: 12000000 INFO @ Sat, 11 Dec 2021 15:23:35: 23000000 INFO @ Sat, 11 Dec 2021 15:23:39: 13000000 INFO @ Sat, 11 Dec 2021 15:23:40: 16000000 INFO @ Sat, 11 Dec 2021 15:23:42: 24000000 INFO @ Sat, 11 Dec 2021 15:23:46: 14000000 INFO @ Sat, 11 Dec 2021 15:23:47: 17000000 INFO @ Sat, 11 Dec 2021 15:23:49: 25000000 INFO @ Sat, 11 Dec 2021 15:23:53: 15000000 INFO @ Sat, 11 Dec 2021 15:23:55: 18000000 INFO @ Sat, 11 Dec 2021 15:23:56: 26000000 INFO @ Sat, 11 Dec 2021 15:24:00: 16000000 INFO @ Sat, 11 Dec 2021 15:24:02: 19000000 INFO @ Sat, 11 Dec 2021 15:24:02: 27000000 INFO @ Sat, 11 Dec 2021 15:24:07: 17000000 INFO @ Sat, 11 Dec 2021 15:24:09: 28000000 INFO @ Sat, 11 Dec 2021 15:24:10: 20000000 INFO @ Sat, 11 Dec 2021 15:24:13: 18000000 INFO @ Sat, 11 Dec 2021 15:24:16: 29000000 INFO @ Sat, 11 Dec 2021 15:24:17: 21000000 INFO @ Sat, 11 Dec 2021 15:24:20: 19000000 INFO @ Sat, 11 Dec 2021 15:24:23: 30000000 INFO @ Sat, 11 Dec 2021 15:24:25: 22000000 INFO @ Sat, 11 Dec 2021 15:24:27: 20000000 INFO @ Sat, 11 Dec 2021 15:24:29: 31000000 INFO @ Sat, 11 Dec 2021 15:24:32: 23000000 INFO @ Sat, 11 Dec 2021 15:24:34: 21000000 INFO @ Sat, 11 Dec 2021 15:24:36: 32000000 INFO @ Sat, 11 Dec 2021 15:24:39: 24000000 INFO @ Sat, 11 Dec 2021 15:24:41: 22000000 INFO @ Sat, 11 Dec 2021 15:24:43: 33000000 INFO @ Sat, 11 Dec 2021 15:24:47: 25000000 INFO @ Sat, 11 Dec 2021 15:24:47: 23000000 INFO @ Sat, 11 Dec 2021 15:24:50: 34000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:24:54: 24000000 INFO @ Sat, 11 Dec 2021 15:24:54: 26000000 INFO @ Sat, 11 Dec 2021 15:24:57: 35000000 INFO @ Sat, 11 Dec 2021 15:25:01: 25000000 INFO @ Sat, 11 Dec 2021 15:25:02: 27000000 INFO @ Sat, 11 Dec 2021 15:25:04: 36000000 INFO @ Sat, 11 Dec 2021 15:25:08: 26000000 INFO @ Sat, 11 Dec 2021 15:25:09: 28000000 INFO @ Sat, 11 Dec 2021 15:25:11: 37000000 INFO @ Sat, 11 Dec 2021 15:25:14: 27000000 INFO @ Sat, 11 Dec 2021 15:25:17: 29000000 INFO @ Sat, 11 Dec 2021 15:25:18: 38000000 INFO @ Sat, 11 Dec 2021 15:25:21: 28000000 INFO @ Sat, 11 Dec 2021 15:25:24: 30000000 INFO @ Sat, 11 Dec 2021 15:25:25: 39000000 INFO @ Sat, 11 Dec 2021 15:25:28: 29000000 INFO @ Sat, 11 Dec 2021 15:25:32: 31000000 INFO @ Sat, 11 Dec 2021 15:25:32: 40000000 INFO @ Sat, 11 Dec 2021 15:25:35: 30000000 INFO @ Sat, 11 Dec 2021 15:25:39: 41000000 INFO @ Sat, 11 Dec 2021 15:25:39: 32000000 INFO @ Sat, 11 Dec 2021 15:25:42: 31000000 INFO @ Sat, 11 Dec 2021 15:25:46: 42000000 INFO @ Sat, 11 Dec 2021 15:25:47: 33000000 INFO @ Sat, 11 Dec 2021 15:25:49: 32000000 INFO @ Sat, 11 Dec 2021 15:25:52: 43000000 INFO @ Sat, 11 Dec 2021 15:25:55: 34000000 INFO @ Sat, 11 Dec 2021 15:25:56: 33000000 INFO @ Sat, 11 Dec 2021 15:25:56: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:25:56: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:25:56: #1 total tags in treatment: 21135297 INFO @ Sat, 11 Dec 2021 15:25:56: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:25:56: #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 15:25:57: #1 tags after filtering in treatment: 19137546 INFO @ Sat, 11 Dec 2021 15:25:57: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 15:25:57: #1 finished! INFO @ Sat, 11 Dec 2021 15:25:57: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:25:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:25:58: #2 number of paired peaks: 1015 INFO @ Sat, 11 Dec 2021 15:25:58: start model_add_line... INFO @ Sat, 11 Dec 2021 15:25:58: start X-correlation... INFO @ Sat, 11 Dec 2021 15:25:58: end of X-cor INFO @ Sat, 11 Dec 2021 15:25:58: #2 finished! INFO @ Sat, 11 Dec 2021 15:25:58: #2 predicted fragment length is 144 bps INFO @ Sat, 11 Dec 2021 15:25:58: #2 alternative fragment length(s) may be 4,144 bps INFO @ Sat, 11 Dec 2021 15:25:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.05_model.r INFO @ Sat, 11 Dec 2021 15:25:58: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:25:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:26:02: 35000000 INFO @ Sat, 11 Dec 2021 15:26:03: 34000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:26:09: 36000000 INFO @ Sat, 11 Dec 2021 15:26:10: 35000000 INFO @ Sat, 11 Dec 2021 15:26:16: 37000000 INFO @ Sat, 11 Dec 2021 15:26:16: 36000000 INFO @ Sat, 11 Dec 2021 15:26:23: 37000000 INFO @ Sat, 11 Dec 2021 15:26:23: 38000000 INFO @ Sat, 11 Dec 2021 15:26:29: 38000000 INFO @ Sat, 11 Dec 2021 15:26:31: 39000000 INFO @ Sat, 11 Dec 2021 15:26:34: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:26:36: 39000000 INFO @ Sat, 11 Dec 2021 15:26:38: 40000000 INFO @ Sat, 11 Dec 2021 15:26:43: 40000000 INFO @ Sat, 11 Dec 2021 15:26:46: 41000000 INFO @ Sat, 11 Dec 2021 15:26:49: 41000000 INFO @ Sat, 11 Dec 2021 15:26:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:26:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:26:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.05_summits.bed INFO @ Sat, 11 Dec 2021 15:26:51: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3518 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:26:53: 42000000 INFO @ Sat, 11 Dec 2021 15:26:56: 42000000 INFO @ Sat, 11 Dec 2021 15:27:00: 43000000 INFO @ Sat, 11 Dec 2021 15:27:03: 43000000 INFO @ Sat, 11 Dec 2021 15:27:04: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:27:04: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:27:04: #1 total tags in treatment: 21135297 INFO @ Sat, 11 Dec 2021 15:27:04: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:27:04: #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 15:27:05: #1 tags after filtering in treatment: 19137546 INFO @ Sat, 11 Dec 2021 15:27:05: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 15:27:05: #1 finished! INFO @ Sat, 11 Dec 2021 15:27:05: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:27:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:27:06: #2 number of paired peaks: 1015 INFO @ Sat, 11 Dec 2021 15:27:06: start model_add_line... INFO @ Sat, 11 Dec 2021 15:27:06: start X-correlation... INFO @ Sat, 11 Dec 2021 15:27:06: end of X-cor INFO @ Sat, 11 Dec 2021 15:27:06: #2 finished! INFO @ Sat, 11 Dec 2021 15:27:06: #2 predicted fragment length is 144 bps INFO @ Sat, 11 Dec 2021 15:27:06: #2 alternative fragment length(s) may be 4,144 bps INFO @ Sat, 11 Dec 2021 15:27:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.10_model.r INFO @ Sat, 11 Dec 2021 15:27:06: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:27:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:27:06: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:27:06: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:27:06: #1 total tags in treatment: 21135297 INFO @ Sat, 11 Dec 2021 15:27:06: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:27:06: #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 15:27:06: #1 tags after filtering in treatment: 19137546 INFO @ Sat, 11 Dec 2021 15:27:06: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 15:27:06: #1 finished! INFO @ Sat, 11 Dec 2021 15:27:06: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:27:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:27:08: #2 number of paired peaks: 1015 INFO @ Sat, 11 Dec 2021 15:27:08: start model_add_line... INFO @ Sat, 11 Dec 2021 15:27:08: start X-correlation... INFO @ Sat, 11 Dec 2021 15:27:08: end of X-cor INFO @ Sat, 11 Dec 2021 15:27:08: #2 finished! INFO @ Sat, 11 Dec 2021 15:27:08: #2 predicted fragment length is 144 bps INFO @ Sat, 11 Dec 2021 15:27:08: #2 alternative fragment length(s) may be 4,144 bps INFO @ Sat, 11 Dec 2021 15:27:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.20_model.r INFO @ Sat, 11 Dec 2021 15:27:08: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:27:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:27:43: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:27:46: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:28:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:28:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:28:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.10_summits.bed INFO @ Sat, 11 Dec 2021 15:28:00: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2126 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:28:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:28:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:28:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628913/SRX7628913.20_summits.bed INFO @ Sat, 11 Dec 2021 15:28:04: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (1191 records, 4 fields): 2 millis CompletedMACS2peakCalling