Job ID = 16433354 SRX = SRX10925646 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 23165936 spots for SRR14580036/SRR14580036.sra Written 23165936 spots for SRR14580036/SRR14580036.sra fastq に変換しました。 bowtie でマッピング中... Your job 16434320 ("srTce11") 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: 00:05:50 23165936 reads; of these: 23165936 (100.00%) were unpaired; of these: 15419861 (66.56%) aligned 0 times 6292824 (27.16%) aligned exactly 1 time 1453251 (6.27%) aligned >1 times 33.44% overall alignment rate Time searching: 00:05:50 Overall time: 00:05:50 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_rmdupse_core] 1442505 / 7746075 = 0.1862 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 09:49:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.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 @ Tue, 02 Aug 2022 09:49:00: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:49:00: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:49:09: 1000000 INFO @ Tue, 02 Aug 2022 09:49:18: 2000000 INFO @ Tue, 02 Aug 2022 09:49:27: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 09:49:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.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 @ Tue, 02 Aug 2022 09:49:31: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:49:31: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:49:38: 4000000 INFO @ Tue, 02 Aug 2022 09:49:42: 1000000 INFO @ Tue, 02 Aug 2022 09:49:47: 5000000 INFO @ Tue, 02 Aug 2022 09:49:51: 2000000 INFO @ Tue, 02 Aug 2022 09:49:56: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 09:49:59: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:49:59: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:49:59: #1 total tags in treatment: 6303570 INFO @ Tue, 02 Aug 2022 09:49:59: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:49:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 09:49:59: #1 tags after filtering in treatment: 6303570 INFO @ Tue, 02 Aug 2022 09:49:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:49:59: #1 finished! INFO @ Tue, 02 Aug 2022 09:49:59: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:49:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:50:00: #2 number of paired peaks: 5391 INFO @ Tue, 02 Aug 2022 09:50:00: start model_add_line... INFO @ Tue, 02 Aug 2022 09:50:00: start X-correlation... INFO @ Tue, 02 Aug 2022 09:50:00: end of X-cor INFO @ Tue, 02 Aug 2022 09:50:00: #2 finished! INFO @ Tue, 02 Aug 2022 09:50:00: #2 predicted fragment length is 241 bps INFO @ Tue, 02 Aug 2022 09:50:00: #2 alternative fragment length(s) may be 241 bps INFO @ Tue, 02 Aug 2022 09:50:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.05_model.r INFO @ Tue, 02 Aug 2022 09:50:00: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:50:00: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:50:00: 3000000 INFO @ Tue, 02 Aug 2022 09:50:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.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 @ Tue, 02 Aug 2022 09:50:01: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:50:01: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:50:08: 4000000 INFO @ Tue, 02 Aug 2022 09:50:09: 1000000 INFO @ Tue, 02 Aug 2022 09:50:17: 2000000 INFO @ Tue, 02 Aug 2022 09:50:17: 5000000 INFO @ Tue, 02 Aug 2022 09:50:23: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:50:24: 3000000 INFO @ Tue, 02 Aug 2022 09:50:25: 6000000 INFO @ Tue, 02 Aug 2022 09:50:28: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:50:28: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:50:28: #1 total tags in treatment: 6303570 INFO @ Tue, 02 Aug 2022 09:50:28: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:50:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 09:50:28: #1 tags after filtering in treatment: 6303570 INFO @ Tue, 02 Aug 2022 09:50:28: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:50:28: #1 finished! INFO @ Tue, 02 Aug 2022 09:50:28: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:50:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:50:29: #2 number of paired peaks: 5391 INFO @ Tue, 02 Aug 2022 09:50:29: start model_add_line... INFO @ Tue, 02 Aug 2022 09:50:29: start X-correlation... INFO @ Tue, 02 Aug 2022 09:50:29: end of X-cor INFO @ Tue, 02 Aug 2022 09:50:29: #2 finished! INFO @ Tue, 02 Aug 2022 09:50:29: #2 predicted fragment length is 241 bps INFO @ Tue, 02 Aug 2022 09:50:29: #2 alternative fragment length(s) may be 241 bps INFO @ Tue, 02 Aug 2022 09:50:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.10_model.r INFO @ Tue, 02 Aug 2022 09:50:29: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:50:29: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:50:32: 4000000 INFO @ Tue, 02 Aug 2022 09:50:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.05_peaks.xls INFO @ Tue, 02 Aug 2022 09:50:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:50:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.05_summits.bed INFO @ Tue, 02 Aug 2022 09:50:33: Done! pass1 - making usageList (6 chroms): 11 millis pass2 - checking and writing primary data (11094 records, 4 fields): 37 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:50:40: 5000000 INFO @ Tue, 02 Aug 2022 09:50:48: 6000000 INFO @ Tue, 02 Aug 2022 09:50:51: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:50:51: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:50:51: #1 total tags in treatment: 6303570 INFO @ Tue, 02 Aug 2022 09:50:51: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:50:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 09:50:51: #1 tags after filtering in treatment: 6303570 INFO @ Tue, 02 Aug 2022 09:50:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:50:51: #1 finished! INFO @ Tue, 02 Aug 2022 09:50:51: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:50:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:50:52: #2 number of paired peaks: 5391 INFO @ Tue, 02 Aug 2022 09:50:52: start model_add_line... INFO @ Tue, 02 Aug 2022 09:50:52: start X-correlation... INFO @ Tue, 02 Aug 2022 09:50:52: end of X-cor INFO @ Tue, 02 Aug 2022 09:50:52: #2 finished! INFO @ Tue, 02 Aug 2022 09:50:52: #2 predicted fragment length is 241 bps INFO @ Tue, 02 Aug 2022 09:50:52: #2 alternative fragment length(s) may be 241 bps INFO @ Tue, 02 Aug 2022 09:50:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.20_model.r INFO @ Tue, 02 Aug 2022 09:50:52: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:50:52: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 09:50:54: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:51:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.10_peaks.xls INFO @ Tue, 02 Aug 2022 09:51:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:51:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.10_summits.bed INFO @ Tue, 02 Aug 2022 09:51:03: Done! pass1 - making usageList (6 chroms): 9 millis pass2 - checking and writing primary data (6610 records, 4 fields): 32 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 09:51:15: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:51:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.20_peaks.xls INFO @ Tue, 02 Aug 2022 09:51:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:51:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925646/SRX10925646.20_summits.bed INFO @ Tue, 02 Aug 2022 09:51:24: Done! pass1 - making usageList (6 chroms): 11 millis pass2 - checking and writing primary data (3003 records, 4 fields): 20 millis CompletedMACS2peakCalling