Job ID = 16433357 SRX = SRX10925649 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 23424289 spots for SRR14580039/SRR14580039.sra Written 23424289 spots for SRR14580039/SRR14580039.sra fastq に変換しました。 bowtie でマッピング中... Your job 16434216 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:04:20 23424289 reads; of these: 23424289 (100.00%) were unpaired; of these: 13683362 (58.42%) aligned 0 times 8653662 (36.94%) aligned exactly 1 time 1087265 (4.64%) aligned >1 times 41.58% overall alignment rate Time searching: 00:04:21 Overall time: 00:04:21 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_rmdupse_core] 2115350 / 9740927 = 0.2172 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 09:47:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.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 09:47:29: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:47:29: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:47:35: 1000000 INFO @ Tue, 02 Aug 2022 09:47:41: 2000000 INFO @ Tue, 02 Aug 2022 09:47:46: 3000000 INFO @ Tue, 02 Aug 2022 09:47:52: 4000000 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 09:47:58: 5000000 INFO @ Tue, 02 Aug 2022 09:47:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.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 09:47:59: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:47:59: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:48:04: 6000000 INFO @ Tue, 02 Aug 2022 09:48:05: 1000000 INFO @ Tue, 02 Aug 2022 09:48:10: 7000000 INFO @ Tue, 02 Aug 2022 09:48:11: 2000000 INFO @ Tue, 02 Aug 2022 09:48:14: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:48:14: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:48:14: #1 total tags in treatment: 7625577 INFO @ Tue, 02 Aug 2022 09:48:14: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:48:14: #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 09:48:14: #1 tags after filtering in treatment: 7625577 INFO @ Tue, 02 Aug 2022 09:48:14: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:48:14: #1 finished! INFO @ Tue, 02 Aug 2022 09:48:14: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:48:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:48:15: #2 number of paired peaks: 7486 INFO @ Tue, 02 Aug 2022 09:48:15: start model_add_line... INFO @ Tue, 02 Aug 2022 09:48:15: start X-correlation... INFO @ Tue, 02 Aug 2022 09:48:15: end of X-cor INFO @ Tue, 02 Aug 2022 09:48:15: #2 finished! INFO @ Tue, 02 Aug 2022 09:48:15: #2 predicted fragment length is 237 bps INFO @ Tue, 02 Aug 2022 09:48:15: #2 alternative fragment length(s) may be 237 bps INFO @ Tue, 02 Aug 2022 09:48:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.05_model.r INFO @ Tue, 02 Aug 2022 09:48:15: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:48:15: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:48:18: 3000000 INFO @ Tue, 02 Aug 2022 09:48:24: 4000000 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 09:48:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.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 09:48:29: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:48:29: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:48:30: 5000000 INFO @ Tue, 02 Aug 2022 09:48:36: 6000000 INFO @ Tue, 02 Aug 2022 09:48:36: 1000000 INFO @ Tue, 02 Aug 2022 09:48:39: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:48:42: 7000000 INFO @ Tue, 02 Aug 2022 09:48:42: 2000000 INFO @ Tue, 02 Aug 2022 09:48:46: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:48:46: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:48:46: #1 total tags in treatment: 7625577 INFO @ Tue, 02 Aug 2022 09:48:46: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:48:46: #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 09:48:46: #1 tags after filtering in treatment: 7625577 INFO @ Tue, 02 Aug 2022 09:48:46: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:48:46: #1 finished! INFO @ Tue, 02 Aug 2022 09:48:46: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:48:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:48:47: #2 number of paired peaks: 7486 INFO @ Tue, 02 Aug 2022 09:48:47: start model_add_line... INFO @ Tue, 02 Aug 2022 09:48:47: start X-correlation... INFO @ Tue, 02 Aug 2022 09:48:47: end of X-cor INFO @ Tue, 02 Aug 2022 09:48:47: #2 finished! INFO @ Tue, 02 Aug 2022 09:48:47: #2 predicted fragment length is 237 bps INFO @ Tue, 02 Aug 2022 09:48:47: #2 alternative fragment length(s) may be 237 bps INFO @ Tue, 02 Aug 2022 09:48:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.10_model.r INFO @ Tue, 02 Aug 2022 09:48:47: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:48:47: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:48:49: 3000000 INFO @ Tue, 02 Aug 2022 09:48:49: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.05_peaks.xls INFO @ Tue, 02 Aug 2022 09:48:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:48:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.05_summits.bed INFO @ Tue, 02 Aug 2022 09:48:49: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (12106 records, 4 fields): 35 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:48:55: 4000000 INFO @ Tue, 02 Aug 2022 09:49:00: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 09:49:06: 6000000 INFO @ Tue, 02 Aug 2022 09:49:11: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:49:12: 7000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 09:49:16: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:49:16: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:49:16: #1 total tags in treatment: 7625577 INFO @ Tue, 02 Aug 2022 09:49:16: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:49:16: #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 09:49:16: #1 tags after filtering in treatment: 7625577 INFO @ Tue, 02 Aug 2022 09:49:16: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:49:16: #1 finished! INFO @ Tue, 02 Aug 2022 09:49:16: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:49:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:49:17: #2 number of paired peaks: 7486 INFO @ Tue, 02 Aug 2022 09:49:17: start model_add_line... INFO @ Tue, 02 Aug 2022 09:49:17: start X-correlation... INFO @ Tue, 02 Aug 2022 09:49:17: end of X-cor INFO @ Tue, 02 Aug 2022 09:49:17: #2 finished! INFO @ Tue, 02 Aug 2022 09:49:17: #2 predicted fragment length is 237 bps INFO @ Tue, 02 Aug 2022 09:49:17: #2 alternative fragment length(s) may be 237 bps INFO @ Tue, 02 Aug 2022 09:49:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.20_model.r INFO @ Tue, 02 Aug 2022 09:49:17: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:49:17: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:49:21: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.10_peaks.xls INFO @ Tue, 02 Aug 2022 09:49:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:49:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.10_summits.bed INFO @ Tue, 02 Aug 2022 09:49:21: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (9449 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:49:41: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:49:50: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.20_peaks.xls INFO @ Tue, 02 Aug 2022 09:49:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:49:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925649/SRX10925649.20_summits.bed INFO @ Tue, 02 Aug 2022 09:49:50: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (6278 records, 4 fields): 19 millis CompletedMACS2peakCalling