Job ID = 14158313 SRX = SRX7665449 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 10974271 spots for SRR11004633/SRR11004633.sra Written 10974271 spots for SRR11004633/SRR11004633.sra fastq に変換しました。 bowtie でマッピング中... Your job 14158832 ("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 10974271 reads; of these: 10974271 (100.00%) were unpaired; of these: 5472545 (49.87%) aligned 0 times 4502034 (41.02%) aligned exactly 1 time 999692 (9.11%) aligned >1 times 50.13% 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] 1772408 / 5501726 = 0.3222 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 @ Wed, 08 Dec 2021 16:01:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.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 @ Wed, 08 Dec 2021 16:01:05: #1 read tag files... INFO @ Wed, 08 Dec 2021 16:01:05: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 16:01:13: 1000000 INFO @ Wed, 08 Dec 2021 16:01:20: 2000000 INFO @ Wed, 08 Dec 2021 16:01:27: 3000000 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 @ Wed, 08 Dec 2021 16:01:32: #1 tag size is determined as 46 bps INFO @ Wed, 08 Dec 2021 16:01:32: #1 tag size = 46 INFO @ Wed, 08 Dec 2021 16:01:32: #1 total tags in treatment: 3729318 INFO @ Wed, 08 Dec 2021 16:01:32: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 16:01:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 16:01:32: #1 tags after filtering in treatment: 3729318 INFO @ Wed, 08 Dec 2021 16:01:32: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 16:01:32: #1 finished! INFO @ Wed, 08 Dec 2021 16:01:32: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 16:01:32: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 16:01:33: #2 number of paired peaks: 1405 INFO @ Wed, 08 Dec 2021 16:01:33: start model_add_line... INFO @ Wed, 08 Dec 2021 16:01:33: start X-correlation... INFO @ Wed, 08 Dec 2021 16:01:33: end of X-cor INFO @ Wed, 08 Dec 2021 16:01:33: #2 finished! INFO @ Wed, 08 Dec 2021 16:01:33: #2 predicted fragment length is 160 bps INFO @ Wed, 08 Dec 2021 16:01:33: #2 alternative fragment length(s) may be 160 bps INFO @ Wed, 08 Dec 2021 16:01:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.05_model.r INFO @ Wed, 08 Dec 2021 16:01:33: #3 Call peaks... INFO @ Wed, 08 Dec 2021 16:01:33: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 16:01:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.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 @ Wed, 08 Dec 2021 16:01:34: #1 read tag files... INFO @ Wed, 08 Dec 2021 16:01:34: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 16:01:43: 1000000 INFO @ Wed, 08 Dec 2021 16:01:45: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 16:01:51: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.05_peaks.xls INFO @ Wed, 08 Dec 2021 16:01:51: 2000000 INFO @ Wed, 08 Dec 2021 16:01:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 16:01:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.05_summits.bed INFO @ Wed, 08 Dec 2021 16:01:51: Done! pass1 - making usageList (7 chroms): 3 millis pass2 - checking and writing primary data (3323 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 16:02:00: 3000000 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 @ Wed, 08 Dec 2021 16:02:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.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 @ Wed, 08 Dec 2021 16:02:04: #1 read tag files... INFO @ Wed, 08 Dec 2021 16:02:04: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 16:02:06: #1 tag size is determined as 46 bps INFO @ Wed, 08 Dec 2021 16:02:06: #1 tag size = 46 INFO @ Wed, 08 Dec 2021 16:02:06: #1 total tags in treatment: 3729318 INFO @ Wed, 08 Dec 2021 16:02:06: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 16:02:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 16:02:06: #1 tags after filtering in treatment: 3729318 INFO @ Wed, 08 Dec 2021 16:02:06: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 16:02:06: #1 finished! INFO @ Wed, 08 Dec 2021 16:02:06: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 16:02:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 16:02:06: #2 number of paired peaks: 1405 INFO @ Wed, 08 Dec 2021 16:02:06: start model_add_line... INFO @ Wed, 08 Dec 2021 16:02:06: start X-correlation... INFO @ Wed, 08 Dec 2021 16:02:06: end of X-cor INFO @ Wed, 08 Dec 2021 16:02:06: #2 finished! INFO @ Wed, 08 Dec 2021 16:02:06: #2 predicted fragment length is 160 bps INFO @ Wed, 08 Dec 2021 16:02:06: #2 alternative fragment length(s) may be 160 bps INFO @ Wed, 08 Dec 2021 16:02:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.10_model.r INFO @ Wed, 08 Dec 2021 16:02:06: #3 Call peaks... INFO @ Wed, 08 Dec 2021 16:02:06: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 16:02:12: 1000000 INFO @ Wed, 08 Dec 2021 16:02:19: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 16:02:21: 2000000 INFO @ Wed, 08 Dec 2021 16:02:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.10_peaks.xls INFO @ Wed, 08 Dec 2021 16:02:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 16:02:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.10_summits.bed INFO @ Wed, 08 Dec 2021 16:02:24: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1971 records, 4 fields): 7 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 16:02:29: 3000000 INFO @ Wed, 08 Dec 2021 16:02:35: #1 tag size is determined as 46 bps INFO @ Wed, 08 Dec 2021 16:02:35: #1 tag size = 46 INFO @ Wed, 08 Dec 2021 16:02:35: #1 total tags in treatment: 3729318 INFO @ Wed, 08 Dec 2021 16:02:35: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 16:02:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 16:02:35: #1 tags after filtering in treatment: 3729318 INFO @ Wed, 08 Dec 2021 16:02:35: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 16:02:35: #1 finished! INFO @ Wed, 08 Dec 2021 16:02:35: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 16:02:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 16:02:35: #2 number of paired peaks: 1405 INFO @ Wed, 08 Dec 2021 16:02:35: start model_add_line... INFO @ Wed, 08 Dec 2021 16:02:35: start X-correlation... INFO @ Wed, 08 Dec 2021 16:02:35: end of X-cor INFO @ Wed, 08 Dec 2021 16:02:35: #2 finished! INFO @ Wed, 08 Dec 2021 16:02:35: #2 predicted fragment length is 160 bps INFO @ Wed, 08 Dec 2021 16:02:35: #2 alternative fragment length(s) may be 160 bps INFO @ Wed, 08 Dec 2021 16:02:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.20_model.r INFO @ Wed, 08 Dec 2021 16:02:35: #3 Call peaks... INFO @ Wed, 08 Dec 2021 16:02:35: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 16:02:48: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 16:02:53: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.20_peaks.xls INFO @ Wed, 08 Dec 2021 16:02:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 16:02:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7665449/SRX7665449.20_summits.bed INFO @ Wed, 08 Dec 2021 16:02:54: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (973 records, 4 fields): 12 millis CompletedMACS2peakCalling