Job ID = 14160152 SRX = SRX8832080 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 13036679 spots for SRR12332038/SRR12332038.sra Written 13036679 spots for SRR12332038/SRR12332038.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160376 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:49 13036679 reads; of these: 13036679 (100.00%) were unpaired; of these: 1364456 (10.47%) aligned 0 times 9619014 (73.78%) aligned exactly 1 time 2053209 (15.75%) aligned >1 times 89.53% overall alignment rate Time searching: 00:02:50 Overall time: 00:02:50 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 2774316 / 11672223 = 0.2377 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 01:06:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.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 01:06:50: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:06:50: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:06:56: 1000000 INFO @ Thu, 09 Dec 2021 01:07:01: 2000000 INFO @ Thu, 09 Dec 2021 01:07:07: 3000000 INFO @ Thu, 09 Dec 2021 01:07:13: 4000000 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 01:07:18: 5000000 INFO @ Thu, 09 Dec 2021 01:07:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.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 01:07:20: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:07:20: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:07:24: 6000000 INFO @ Thu, 09 Dec 2021 01:07:26: 1000000 INFO @ Thu, 09 Dec 2021 01:07:31: 7000000 INFO @ Thu, 09 Dec 2021 01:07:33: 2000000 INFO @ Thu, 09 Dec 2021 01:07:37: 8000000 INFO @ Thu, 09 Dec 2021 01:07:39: 3000000 INFO @ Thu, 09 Dec 2021 01:07:43: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:07:43: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:07:43: #1 total tags in treatment: 8897907 INFO @ Thu, 09 Dec 2021 01:07:43: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:07:43: #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 01:07:43: #1 tags after filtering in treatment: 8897907 INFO @ Thu, 09 Dec 2021 01:07:43: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:07:43: #1 finished! INFO @ Thu, 09 Dec 2021 01:07:43: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:07:43: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:07:44: #2 number of paired peaks: 2402 INFO @ Thu, 09 Dec 2021 01:07:44: start model_add_line... INFO @ Thu, 09 Dec 2021 01:07:44: start X-correlation... INFO @ Thu, 09 Dec 2021 01:07:44: end of X-cor INFO @ Thu, 09 Dec 2021 01:07:44: #2 finished! INFO @ Thu, 09 Dec 2021 01:07:44: #2 predicted fragment length is 148 bps INFO @ Thu, 09 Dec 2021 01:07:44: #2 alternative fragment length(s) may be 148 bps INFO @ Thu, 09 Dec 2021 01:07:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.05_model.r INFO @ Thu, 09 Dec 2021 01:07:44: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:07:44: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:07:45: 4000000 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 01:07:51: 5000000 INFO @ Thu, 09 Dec 2021 01:07:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.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 01:07:52: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:07:52: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:07:58: 6000000 INFO @ Thu, 09 Dec 2021 01:07:59: 1000000 INFO @ Thu, 09 Dec 2021 01:08:03: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:08:06: 7000000 INFO @ Thu, 09 Dec 2021 01:08:07: 2000000 INFO @ Thu, 09 Dec 2021 01:08:12: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.05_peaks.xls INFO @ Thu, 09 Dec 2021 01:08:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:08:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.05_summits.bed INFO @ Thu, 09 Dec 2021 01:08:13: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (7272 records, 4 fields): 45 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 01:08:13: 8000000 INFO @ Thu, 09 Dec 2021 01:08:15: 3000000 INFO @ Thu, 09 Dec 2021 01:08:19: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:08:19: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:08:19: #1 total tags in treatment: 8897907 INFO @ Thu, 09 Dec 2021 01:08:19: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:08:19: #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 01:08:20: #1 tags after filtering in treatment: 8897907 INFO @ Thu, 09 Dec 2021 01:08:20: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:08:20: #1 finished! INFO @ Thu, 09 Dec 2021 01:08:20: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:08:20: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:08:20: #2 number of paired peaks: 2402 INFO @ Thu, 09 Dec 2021 01:08:20: start model_add_line... INFO @ Thu, 09 Dec 2021 01:08:20: start X-correlation... INFO @ Thu, 09 Dec 2021 01:08:20: end of X-cor INFO @ Thu, 09 Dec 2021 01:08:20: #2 finished! INFO @ Thu, 09 Dec 2021 01:08:20: #2 predicted fragment length is 148 bps INFO @ Thu, 09 Dec 2021 01:08:20: #2 alternative fragment length(s) may be 148 bps INFO @ Thu, 09 Dec 2021 01:08:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.10_model.r INFO @ Thu, 09 Dec 2021 01:08:20: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:08:20: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:08:23: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 01:08:30: 5000000 INFO @ Thu, 09 Dec 2021 01:08:37: 6000000 INFO @ Thu, 09 Dec 2021 01:08:41: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:08:45: 7000000 BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 01:08:51: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.10_peaks.xls INFO @ Thu, 09 Dec 2021 01:08:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:08:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.10_summits.bed INFO @ Thu, 09 Dec 2021 01:08:51: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5745 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 01:08:52: 8000000 INFO @ Thu, 09 Dec 2021 01:08:59: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:08:59: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:08:59: #1 total tags in treatment: 8897907 INFO @ Thu, 09 Dec 2021 01:08:59: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:08:59: #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 01:08:59: #1 tags after filtering in treatment: 8897907 INFO @ Thu, 09 Dec 2021 01:08:59: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:08:59: #1 finished! INFO @ Thu, 09 Dec 2021 01:08:59: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:08:59: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:09:00: #2 number of paired peaks: 2402 INFO @ Thu, 09 Dec 2021 01:09:00: start model_add_line... INFO @ Thu, 09 Dec 2021 01:09:00: start X-correlation... INFO @ Thu, 09 Dec 2021 01:09:00: end of X-cor INFO @ Thu, 09 Dec 2021 01:09:00: #2 finished! INFO @ Thu, 09 Dec 2021 01:09:00: #2 predicted fragment length is 148 bps INFO @ Thu, 09 Dec 2021 01:09:00: #2 alternative fragment length(s) may be 148 bps INFO @ Thu, 09 Dec 2021 01:09:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.20_model.r INFO @ Thu, 09 Dec 2021 01:09:00: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:09:00: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:09:19: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:09:28: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.20_peaks.xls INFO @ Thu, 09 Dec 2021 01:09:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:09:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832080/SRX8832080.20_summits.bed INFO @ Thu, 09 Dec 2021 01:09:28: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4271 records, 4 fields): 6 millis CompletedMACS2peakCalling