Job ID = 14518023 SRX = SRX10533679 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 4000000 spots for SRR14165436/SRR14165436.sra Written 4000000 spots for SRR14165436/SRR14165436.sra Read 4000000 spots for SRR14165437/SRR14165437.sra Written 4000000 spots for SRR14165437/SRR14165437.sra Read 4000000 spots for SRR14165438/SRR14165438.sra Written 4000000 spots for SRR14165438/SRR14165438.sra Read 4000000 spots for SRR14165439/SRR14165439.sra Written 4000000 spots for SRR14165439/SRR14165439.sra 2022-01-14T22:34:45 prefetch.2.10.7: 1) Downloading 'SRR14165440'... 2022-01-14T22:34:45 prefetch.2.10.7: Downloading via HTTPS... 2022-01-14T22:34:55 prefetch.2.10.7: HTTPS download succeed 2022-01-14T22:34:55 prefetch.2.10.7: 'SRR14165440' is valid 2022-01-14T22:34:55 prefetch.2.10.7: 1) 'SRR14165440' was downloaded successfully 2022-01-14T22:34:55 prefetch.2.10.7: 'SRR14165440' has 0 unresolved dependencies Read 4000000 spots for SRR14165440/SRR14165440.sra Written 4000000 spots for SRR14165440/SRR14165440.sra 2022-01-14T22:35:25 prefetch.2.10.7: 1) Downloading 'SRR14165441'... 2022-01-14T22:35:25 prefetch.2.10.7: Downloading via HTTPS... 2022-01-14T22:35:28 prefetch.2.10.7: HTTPS download succeed 2022-01-14T22:35:28 prefetch.2.10.7: 'SRR14165441' is valid 2022-01-14T22:35:28 prefetch.2.10.7: 1) 'SRR14165441' was downloaded successfully 2022-01-14T22:35:28 prefetch.2.10.7: 'SRR14165441' has 0 unresolved dependencies Read 486744 spots for SRR14165441/SRR14165441.sra Written 486744 spots for SRR14165441/SRR14165441.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:02 Time loading mirror index: 00:00:02 Multiseed full-index search: 00:11:44 20486744 reads; of these: 20486744 (100.00%) were unpaired; of these: 8222937 (40.14%) aligned 0 times 9901857 (48.33%) aligned exactly 1 time 2361950 (11.53%) aligned >1 times 59.86% overall alignment rate Time searching: 00:11:50 Overall time: 00:11:50 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 953 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3663247 / 12263807 = 0.2987 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, 15 Jan 2022 07:52:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.bam'] # control file = None # effective genome size = 2.15e+09 # 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, 15 Jan 2022 07:52:25: #1 read tag files... INFO @ Sat, 15 Jan 2022 07:52:25: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 07:52:35: 1000000 INFO @ Sat, 15 Jan 2022 07:52:45: 2000000 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, 15 Jan 2022 07:52:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.bam'] # control file = None # effective genome size = 2.15e+09 # 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, 15 Jan 2022 07:52:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 07:52:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 07:52:55: 3000000 INFO @ Sat, 15 Jan 2022 07:53:04: 1000000 INFO @ Sat, 15 Jan 2022 07:53:07: 4000000 INFO @ Sat, 15 Jan 2022 07:53:15: 2000000 INFO @ Sat, 15 Jan 2022 07:53:18: 5000000 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, 15 Jan 2022 07:53:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.bam'] # control file = None # effective genome size = 2.15e+09 # 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, 15 Jan 2022 07:53:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 07:53:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 07:53:24: 3000000 INFO @ Sat, 15 Jan 2022 07:53:29: 6000000 INFO @ Sat, 15 Jan 2022 07:53:34: 4000000 INFO @ Sat, 15 Jan 2022 07:53:35: 1000000 INFO @ Sat, 15 Jan 2022 07:53:41: 7000000 INFO @ Sat, 15 Jan 2022 07:53:43: 5000000 INFO @ Sat, 15 Jan 2022 07:53:47: 2000000 INFO @ Sat, 15 Jan 2022 07:53:52: 8000000 INFO @ Sat, 15 Jan 2022 07:53:53: 6000000 INFO @ Sat, 15 Jan 2022 07:53:59: 3000000 INFO @ Sat, 15 Jan 2022 07:53:59: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 07:53:59: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 07:53:59: #1 total tags in treatment: 8600560 INFO @ Sat, 15 Jan 2022 07:53:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 07:53:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 07:54:00: #1 tags after filtering in treatment: 8600329 INFO @ Sat, 15 Jan 2022 07:54:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 07:54:00: #1 finished! INFO @ Sat, 15 Jan 2022 07:54:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 07:54:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 07:54:02: 7000000 INFO @ Sat, 15 Jan 2022 07:54:03: #2 number of paired peaks: 56651 INFO @ Sat, 15 Jan 2022 07:54:03: start model_add_line... INFO @ Sat, 15 Jan 2022 07:54:03: start X-correlation... INFO @ Sat, 15 Jan 2022 07:54:03: end of X-cor INFO @ Sat, 15 Jan 2022 07:54:03: #2 finished! INFO @ Sat, 15 Jan 2022 07:54:03: #2 predicted fragment length is 296 bps INFO @ Sat, 15 Jan 2022 07:54:03: #2 alternative fragment length(s) may be 296 bps INFO @ Sat, 15 Jan 2022 07:54:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.05_model.r INFO @ Sat, 15 Jan 2022 07:54:03: #3 Call peaks... INFO @ Sat, 15 Jan 2022 07:54:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 07:54:10: 4000000 INFO @ Sat, 15 Jan 2022 07:54:12: 8000000 INFO @ Sat, 15 Jan 2022 07:54:17: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 07:54:17: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 07:54:17: #1 total tags in treatment: 8600560 INFO @ Sat, 15 Jan 2022 07:54:17: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 07:54:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 07:54:18: #1 tags after filtering in treatment: 8600329 INFO @ Sat, 15 Jan 2022 07:54:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 07:54:18: #1 finished! INFO @ Sat, 15 Jan 2022 07:54:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 07:54:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 07:54:21: 5000000 INFO @ Sat, 15 Jan 2022 07:54:21: #2 number of paired peaks: 56651 INFO @ Sat, 15 Jan 2022 07:54:21: start model_add_line... INFO @ Sat, 15 Jan 2022 07:54:21: start X-correlation... INFO @ Sat, 15 Jan 2022 07:54:21: end of X-cor INFO @ Sat, 15 Jan 2022 07:54:21: #2 finished! INFO @ Sat, 15 Jan 2022 07:54:21: #2 predicted fragment length is 296 bps INFO @ Sat, 15 Jan 2022 07:54:21: #2 alternative fragment length(s) may be 296 bps INFO @ Sat, 15 Jan 2022 07:54:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.10_model.r INFO @ Sat, 15 Jan 2022 07:54:21: #3 Call peaks... INFO @ Sat, 15 Jan 2022 07:54:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 07:54:31: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 07:54:35: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 07:54:42: 7000000 INFO @ Sat, 15 Jan 2022 07:54:50: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.05_peaks.xls INFO @ Sat, 15 Jan 2022 07:54:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 07:54:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.05_summits.bed INFO @ Sat, 15 Jan 2022 07:54:50: Done! pass1 - making usageList (55 chroms): 2 millis pass2 - checking and writing primary data (1676 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 07:54:52: 8000000 INFO @ Sat, 15 Jan 2022 07:54:53: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 07:54:59: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 07:54:59: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 07:54:59: #1 total tags in treatment: 8600560 INFO @ Sat, 15 Jan 2022 07:54:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 07:54:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 07:54:59: #1 tags after filtering in treatment: 8600329 INFO @ Sat, 15 Jan 2022 07:54:59: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 07:54:59: #1 finished! INFO @ Sat, 15 Jan 2022 07:54:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 07:54:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 07:55:02: #2 number of paired peaks: 56651 INFO @ Sat, 15 Jan 2022 07:55:02: start model_add_line... INFO @ Sat, 15 Jan 2022 07:55:02: start X-correlation... INFO @ Sat, 15 Jan 2022 07:55:02: end of X-cor INFO @ Sat, 15 Jan 2022 07:55:02: #2 finished! INFO @ Sat, 15 Jan 2022 07:55:02: #2 predicted fragment length is 296 bps INFO @ Sat, 15 Jan 2022 07:55:02: #2 alternative fragment length(s) may be 296 bps INFO @ Sat, 15 Jan 2022 07:55:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.20_model.r INFO @ Sat, 15 Jan 2022 07:55:02: #3 Call peaks... INFO @ Sat, 15 Jan 2022 07:55:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 07:55:08: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.10_peaks.xls INFO @ Sat, 15 Jan 2022 07:55:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 07:55:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.10_summits.bed INFO @ Sat, 15 Jan 2022 07:55:08: Done! pass1 - making usageList (47 chroms): 1 millis pass2 - checking and writing primary data (682 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 07:55:34: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 07:55:49: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.20_peaks.xls INFO @ Sat, 15 Jan 2022 07:55:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 07:55:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX10533679/SRX10533679.20_summits.bed INFO @ Sat, 15 Jan 2022 07:55:49: Done! pass1 - making usageList (32 chroms): 2 millis pass2 - checking and writing primary data (241 records, 4 fields): 3 millis CompletedMACS2peakCalling