Job ID = 14160467 SRX = SRX9904333 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 7843902 spots for SRR13491819/SRR13491819.sra Written 7843902 spots for SRR13491819/SRR13491819.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160601 ("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: 00:01:45 7843902 reads; of these: 7843902 (100.00%) were unpaired; of these: 489617 (6.24%) aligned 0 times 6449822 (82.23%) aligned exactly 1 time 904463 (11.53%) aligned >1 times 93.76% overall alignment rate Time searching: 00:01:45 Overall time: 00:01:45 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] 1022468 / 7354285 = 0.1390 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 02:45:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.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 02:45:34: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:45:34: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:45:39: 1000000 INFO @ Thu, 09 Dec 2021 02:45:43: 2000000 INFO @ Thu, 09 Dec 2021 02:45:48: 3000000 INFO @ Thu, 09 Dec 2021 02:45:52: 4000000 INFO @ Thu, 09 Dec 2021 02:45:57: 5000000 INFO @ Thu, 09 Dec 2021 02:46:01: 6000000 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 02:46:03: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:46:03: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:46:03: #1 total tags in treatment: 6331817 INFO @ Thu, 09 Dec 2021 02:46:03: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:46:03: #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 02:46:03: #1 tags after filtering in treatment: 6331817 INFO @ Thu, 09 Dec 2021 02:46:03: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:46:03: #1 finished! INFO @ Thu, 09 Dec 2021 02:46:03: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:46:03: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:46:04: #2 number of paired peaks: 2339 INFO @ Thu, 09 Dec 2021 02:46:04: start model_add_line... INFO @ Thu, 09 Dec 2021 02:46:04: start X-correlation... INFO @ Thu, 09 Dec 2021 02:46:04: end of X-cor INFO @ Thu, 09 Dec 2021 02:46:04: #2 finished! INFO @ Thu, 09 Dec 2021 02:46:04: #2 predicted fragment length is 324 bps INFO @ Thu, 09 Dec 2021 02:46:04: #2 alternative fragment length(s) may be 324 bps INFO @ Thu, 09 Dec 2021 02:46:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.05_model.r INFO @ Thu, 09 Dec 2021 02:46:04: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:46:04: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:46:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.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 02:46:04: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:46:04: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:46:09: 1000000 INFO @ Thu, 09 Dec 2021 02:46:13: 2000000 INFO @ Thu, 09 Dec 2021 02:46:18: 3000000 INFO @ Thu, 09 Dec 2021 02:46:22: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:46:22: 4000000 INFO @ Thu, 09 Dec 2021 02:46:27: 5000000 INFO @ Thu, 09 Dec 2021 02:46:29: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.05_peaks.xls INFO @ Thu, 09 Dec 2021 02:46:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:46:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.05_summits.bed INFO @ Thu, 09 Dec 2021 02:46:29: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3286 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 02:46:31: 6000000 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 02:46:33: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:46:33: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:46:33: #1 total tags in treatment: 6331817 INFO @ Thu, 09 Dec 2021 02:46:33: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:46:33: #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 02:46:33: #1 tags after filtering in treatment: 6331817 INFO @ Thu, 09 Dec 2021 02:46:33: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:46:33: #1 finished! INFO @ Thu, 09 Dec 2021 02:46:33: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:46:33: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:46:33: #2 number of paired peaks: 2339 INFO @ Thu, 09 Dec 2021 02:46:33: start model_add_line... INFO @ Thu, 09 Dec 2021 02:46:33: start X-correlation... INFO @ Thu, 09 Dec 2021 02:46:33: end of X-cor INFO @ Thu, 09 Dec 2021 02:46:33: #2 finished! INFO @ Thu, 09 Dec 2021 02:46:33: #2 predicted fragment length is 324 bps INFO @ Thu, 09 Dec 2021 02:46:33: #2 alternative fragment length(s) may be 324 bps INFO @ Thu, 09 Dec 2021 02:46:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.10_model.r INFO @ Thu, 09 Dec 2021 02:46:33: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:46:33: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:46:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.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 02:46:34: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:46:34: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:46:39: 1000000 INFO @ Thu, 09 Dec 2021 02:46:45: 2000000 INFO @ Thu, 09 Dec 2021 02:46:50: 3000000 INFO @ Thu, 09 Dec 2021 02:46:51: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:46:55: 4000000 INFO @ Thu, 09 Dec 2021 02:46:59: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.10_peaks.xls INFO @ Thu, 09 Dec 2021 02:46:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:46:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.10_summits.bed INFO @ Thu, 09 Dec 2021 02:46:59: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (1949 records, 4 fields): 3 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 02:47:00: 5000000 INFO @ Thu, 09 Dec 2021 02:47:05: 6000000 INFO @ Thu, 09 Dec 2021 02:47:07: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:47:07: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:47:07: #1 total tags in treatment: 6331817 INFO @ Thu, 09 Dec 2021 02:47:07: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:47:07: #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 02:47:07: #1 tags after filtering in treatment: 6331817 INFO @ Thu, 09 Dec 2021 02:47:07: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:47:07: #1 finished! INFO @ Thu, 09 Dec 2021 02:47:07: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:47:07: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:47:08: #2 number of paired peaks: 2339 INFO @ Thu, 09 Dec 2021 02:47:08: start model_add_line... INFO @ Thu, 09 Dec 2021 02:47:08: start X-correlation... INFO @ Thu, 09 Dec 2021 02:47:08: end of X-cor INFO @ Thu, 09 Dec 2021 02:47:08: #2 finished! INFO @ Thu, 09 Dec 2021 02:47:08: #2 predicted fragment length is 324 bps INFO @ Thu, 09 Dec 2021 02:47:08: #2 alternative fragment length(s) may be 324 bps INFO @ Thu, 09 Dec 2021 02:47:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.20_model.r INFO @ Thu, 09 Dec 2021 02:47:08: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:47:08: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 02:47:25: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:47:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.20_peaks.xls INFO @ Thu, 09 Dec 2021 02:47:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:47:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX9904333/SRX9904333.20_summits.bed INFO @ Thu, 09 Dec 2021 02:47:33: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (868 records, 4 fields): 3 millis CompletedMACS2peakCalling