Job ID = 14159637 SRX = SRX8976696 Genome = ce11 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:13:21 16593452 reads; of these: 16593452 (100.00%) were paired; of these: 1137868 (6.86%) aligned concordantly 0 times 12860186 (77.50%) aligned concordantly exactly 1 time 2595398 (15.64%) aligned concordantly >1 times ---- 1137868 pairs aligned concordantly 0 times; of these: 595937 (52.37%) aligned discordantly 1 time ---- 541931 pairs aligned 0 times concordantly or discordantly; of these: 1083862 mates make up the pairs; of these: 660450 (60.93%) aligned 0 times 173200 (15.98%) aligned exactly 1 time 250212 (23.09%) aligned >1 times 98.01% overall alignment rate Time searching: 00:13:21 Overall time: 00:13:21 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 12 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] 1993136 / 16041922 = 0.1242 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 @ Thu, 09 Dec 2021 00:02:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 09 Dec 2021 00:02:03: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:02:03: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:02:08: 1000000 INFO @ Thu, 09 Dec 2021 00:02:13: 2000000 INFO @ Thu, 09 Dec 2021 00:02:19: 3000000 INFO @ Thu, 09 Dec 2021 00:02:24: 4000000 INFO @ Thu, 09 Dec 2021 00:02:29: 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 @ Thu, 09 Dec 2021 00:02:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 09 Dec 2021 00:02:33: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:02:33: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:02:35: 6000000 INFO @ Thu, 09 Dec 2021 00:02:39: 1000000 INFO @ Thu, 09 Dec 2021 00:02:41: 7000000 INFO @ Thu, 09 Dec 2021 00:02:45: 2000000 INFO @ Thu, 09 Dec 2021 00:02:47: 8000000 INFO @ Thu, 09 Dec 2021 00:02:51: 3000000 INFO @ Thu, 09 Dec 2021 00:02:52: 9000000 INFO @ Thu, 09 Dec 2021 00:02:57: 4000000 INFO @ Thu, 09 Dec 2021 00:02:58: 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 @ Thu, 09 Dec 2021 00:03:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 09 Dec 2021 00:03:03: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:03:03: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:03:03: 5000000 INFO @ Thu, 09 Dec 2021 00:03:04: 11000000 INFO @ Thu, 09 Dec 2021 00:03:08: 1000000 INFO @ Thu, 09 Dec 2021 00:03:10: 6000000 INFO @ Thu, 09 Dec 2021 00:03:10: 12000000 INFO @ Thu, 09 Dec 2021 00:03:14: 2000000 INFO @ Thu, 09 Dec 2021 00:03:16: 7000000 INFO @ Thu, 09 Dec 2021 00:03:16: 13000000 INFO @ Thu, 09 Dec 2021 00:03:19: 3000000 INFO @ Thu, 09 Dec 2021 00:03:22: 14000000 INFO @ Thu, 09 Dec 2021 00:03:22: 8000000 INFO @ Thu, 09 Dec 2021 00:03:25: 4000000 INFO @ Thu, 09 Dec 2021 00:03:28: 15000000 INFO @ Thu, 09 Dec 2021 00:03:28: 9000000 INFO @ Thu, 09 Dec 2021 00:03:30: 5000000 INFO @ Thu, 09 Dec 2021 00:03:34: 16000000 INFO @ Thu, 09 Dec 2021 00:03:35: 10000000 INFO @ Thu, 09 Dec 2021 00:03:36: 6000000 INFO @ Thu, 09 Dec 2021 00:03:40: 17000000 INFO @ Thu, 09 Dec 2021 00:03:41: 11000000 INFO @ Thu, 09 Dec 2021 00:03:41: 7000000 INFO @ Thu, 09 Dec 2021 00:03:46: 18000000 INFO @ Thu, 09 Dec 2021 00:03:47: 8000000 INFO @ Thu, 09 Dec 2021 00:03:47: 12000000 INFO @ Thu, 09 Dec 2021 00:03:51: 19000000 INFO @ Thu, 09 Dec 2021 00:03:52: 9000000 INFO @ Thu, 09 Dec 2021 00:03:53: 13000000 INFO @ Thu, 09 Dec 2021 00:03:57: 20000000 INFO @ Thu, 09 Dec 2021 00:03:58: 10000000 INFO @ Thu, 09 Dec 2021 00:04:00: 14000000 INFO @ Thu, 09 Dec 2021 00:04:03: 21000000 INFO @ Thu, 09 Dec 2021 00:04:03: 11000000 INFO @ Thu, 09 Dec 2021 00:04:06: 15000000 INFO @ Thu, 09 Dec 2021 00:04:09: 12000000 INFO @ Thu, 09 Dec 2021 00:04:09: 22000000 INFO @ Thu, 09 Dec 2021 00:04:12: 16000000 INFO @ Thu, 09 Dec 2021 00:04:14: 13000000 INFO @ Thu, 09 Dec 2021 00:04:15: 23000000 INFO @ Thu, 09 Dec 2021 00:04:18: 17000000 INFO @ Thu, 09 Dec 2021 00:04:20: 14000000 INFO @ Thu, 09 Dec 2021 00:04:21: 24000000 INFO @ Thu, 09 Dec 2021 00:04:25: 18000000 INFO @ Thu, 09 Dec 2021 00:04:25: 15000000 INFO @ Thu, 09 Dec 2021 00:04:27: 25000000 INFO @ Thu, 09 Dec 2021 00:04:31: 19000000 INFO @ Thu, 09 Dec 2021 00:04:31: 16000000 INFO @ Thu, 09 Dec 2021 00:04:32: 26000000 INFO @ Thu, 09 Dec 2021 00:04:36: 17000000 INFO @ Thu, 09 Dec 2021 00:04:37: 20000000 INFO @ Thu, 09 Dec 2021 00:04:38: 27000000 INFO @ Thu, 09 Dec 2021 00:04:42: 18000000 INFO @ Thu, 09 Dec 2021 00:04:43: 21000000 INFO @ Thu, 09 Dec 2021 00:04:44: 28000000 INFO @ Thu, 09 Dec 2021 00:04:47: #1 tag size is determined as 42 bps INFO @ Thu, 09 Dec 2021 00:04:47: #1 tag size = 42 INFO @ Thu, 09 Dec 2021 00:04:47: #1 total tags in treatment: 13511130 INFO @ Thu, 09 Dec 2021 00:04:47: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:04:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 00:04:48: #1 tags after filtering in treatment: 12134488 INFO @ Thu, 09 Dec 2021 00:04:48: #1 Redundant rate of treatment: 0.10 INFO @ Thu, 09 Dec 2021 00:04:48: #1 finished! INFO @ Thu, 09 Dec 2021 00:04:48: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:04:48: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:04:48: 19000000 INFO @ Thu, 09 Dec 2021 00:04:48: #2 number of paired peaks: 1234 INFO @ Thu, 09 Dec 2021 00:04:48: start model_add_line... INFO @ Thu, 09 Dec 2021 00:04:48: start X-correlation... INFO @ Thu, 09 Dec 2021 00:04:48: end of X-cor INFO @ Thu, 09 Dec 2021 00:04:48: #2 finished! INFO @ Thu, 09 Dec 2021 00:04:48: #2 predicted fragment length is 191 bps INFO @ Thu, 09 Dec 2021 00:04:48: #2 alternative fragment length(s) may be 2,175,191,220 bps INFO @ Thu, 09 Dec 2021 00:04:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.05_model.r INFO @ Thu, 09 Dec 2021 00:04:48: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:04:48: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:04:49: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 00:04:53: 20000000 INFO @ Thu, 09 Dec 2021 00:04:56: 23000000 INFO @ Thu, 09 Dec 2021 00:04:58: 21000000 INFO @ Thu, 09 Dec 2021 00:05:02: 24000000 INFO @ Thu, 09 Dec 2021 00:05:04: 22000000 INFO @ Thu, 09 Dec 2021 00:05:08: 25000000 INFO @ Thu, 09 Dec 2021 00:05:09: 23000000 INFO @ Thu, 09 Dec 2021 00:05:14: 26000000 INFO @ Thu, 09 Dec 2021 00:05:15: 24000000 INFO @ Thu, 09 Dec 2021 00:05:17: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:05:20: 25000000 INFO @ Thu, 09 Dec 2021 00:05:20: 27000000 INFO @ Thu, 09 Dec 2021 00:05:26: 26000000 INFO @ Thu, 09 Dec 2021 00:05:26: 28000000 INFO @ Thu, 09 Dec 2021 00:05:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.05_peaks.xls INFO @ Thu, 09 Dec 2021 00:05:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:05:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.05_summits.bed INFO @ Thu, 09 Dec 2021 00:05:30: Done! INFO @ Thu, 09 Dec 2021 00:05:30: #1 tag size is determined as 42 bps INFO @ Thu, 09 Dec 2021 00:05:30: #1 tag size = 42 INFO @ Thu, 09 Dec 2021 00:05:30: #1 total tags in treatment: 13511130 INFO @ Thu, 09 Dec 2021 00:05:30: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:05:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 00:05:30: #1 tags after filtering in treatment: 12134488 INFO @ Thu, 09 Dec 2021 00:05:30: #1 Redundant rate of treatment: 0.10 INFO @ Thu, 09 Dec 2021 00:05:30: #1 finished! INFO @ Thu, 09 Dec 2021 00:05:30: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:05:30: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (1088 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:05:31: #2 number of paired peaks: 1234 INFO @ Thu, 09 Dec 2021 00:05:31: start model_add_line... INFO @ Thu, 09 Dec 2021 00:05:31: start X-correlation... INFO @ Thu, 09 Dec 2021 00:05:31: 27000000 INFO @ Thu, 09 Dec 2021 00:05:31: end of X-cor INFO @ Thu, 09 Dec 2021 00:05:31: #2 finished! INFO @ Thu, 09 Dec 2021 00:05:31: #2 predicted fragment length is 191 bps INFO @ Thu, 09 Dec 2021 00:05:31: #2 alternative fragment length(s) may be 2,175,191,220 bps INFO @ Thu, 09 Dec 2021 00:05:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.10_model.r INFO @ Thu, 09 Dec 2021 00:05:31: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:05:31: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:05:36: 28000000 INFO @ Thu, 09 Dec 2021 00:05:38: #1 tag size is determined as 42 bps INFO @ Thu, 09 Dec 2021 00:05:38: #1 tag size = 42 INFO @ Thu, 09 Dec 2021 00:05:38: #1 total tags in treatment: 13511130 INFO @ Thu, 09 Dec 2021 00:05:38: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:05:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 00:05:39: #1 tags after filtering in treatment: 12134488 INFO @ Thu, 09 Dec 2021 00:05:39: #1 Redundant rate of treatment: 0.10 INFO @ Thu, 09 Dec 2021 00:05:39: #1 finished! INFO @ Thu, 09 Dec 2021 00:05:39: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:05:39: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:05:40: #2 number of paired peaks: 1234 INFO @ Thu, 09 Dec 2021 00:05:40: start model_add_line... INFO @ Thu, 09 Dec 2021 00:05:40: start X-correlation... INFO @ Thu, 09 Dec 2021 00:05:40: end of X-cor INFO @ Thu, 09 Dec 2021 00:05:40: #2 finished! INFO @ Thu, 09 Dec 2021 00:05:40: #2 predicted fragment length is 191 bps INFO @ Thu, 09 Dec 2021 00:05:40: #2 alternative fragment length(s) may be 2,175,191,220 bps INFO @ Thu, 09 Dec 2021 00:05:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.20_model.r INFO @ Thu, 09 Dec 2021 00:05:40: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:05:40: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 00:05:58: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:06:08: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:06:10: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.10_peaks.xls INFO @ Thu, 09 Dec 2021 00:06:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:06:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.10_summits.bed INFO @ Thu, 09 Dec 2021 00:06:10: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (486 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:06:19: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.20_peaks.xls INFO @ Thu, 09 Dec 2021 00:06:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:06:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8976696/SRX8976696.20_summits.bed INFO @ Thu, 09 Dec 2021 00:06:19: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (197 records, 4 fields): 2 millis CompletedMACS2peakCalling