Job ID = 14157912 SRX = SRX6717205 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 16001701 spots for SRR9969877/SRR9969877.sra Written 16001701 spots for SRR9969877/SRR9969877.sra fastq に変換しました。 bowtie でマッピング中... Your job 14158116 ("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: 00:02:28 16001701 reads; of these: 16001701 (100.00%) were unpaired; of these: 13453520 (84.08%) aligned 0 times 2296262 (14.35%) aligned exactly 1 time 251919 (1.57%) aligned >1 times 15.92% overall alignment rate Time searching: 00:02:28 Overall time: 00:02:28 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] 838128 / 2548181 = 0.3289 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 12:44:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.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 12:44:12: #1 read tag files... INFO @ Wed, 08 Dec 2021 12:44:12: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 12:44:19: 1000000 INFO @ Wed, 08 Dec 2021 12:44:23: #1 tag size is determined as 76 bps INFO @ Wed, 08 Dec 2021 12:44:23: #1 tag size = 76 INFO @ Wed, 08 Dec 2021 12:44:23: #1 total tags in treatment: 1710053 INFO @ Wed, 08 Dec 2021 12:44:23: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 12:44:23: #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 12:44:23: #1 tags after filtering in treatment: 1710053 INFO @ Wed, 08 Dec 2021 12:44:23: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 12:44:23: #1 finished! INFO @ Wed, 08 Dec 2021 12:44:23: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 12:44:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 12:44:23: #2 number of paired peaks: 3307 INFO @ Wed, 08 Dec 2021 12:44:23: start model_add_line... INFO @ Wed, 08 Dec 2021 12:44:23: start X-correlation... INFO @ Wed, 08 Dec 2021 12:44:23: end of X-cor INFO @ Wed, 08 Dec 2021 12:44:23: #2 finished! INFO @ Wed, 08 Dec 2021 12:44:23: #2 predicted fragment length is 145 bps INFO @ Wed, 08 Dec 2021 12:44:23: #2 alternative fragment length(s) may be 145 bps INFO @ Wed, 08 Dec 2021 12:44:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.05_model.r WARNING @ Wed, 08 Dec 2021 12:44:23: #2 Since the d (145) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Wed, 08 Dec 2021 12:44:23: #2 You may need to consider one of the other alternative d(s): 145 WARNING @ Wed, 08 Dec 2021 12:44:23: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Wed, 08 Dec 2021 12:44:23: #3 Call peaks... INFO @ Wed, 08 Dec 2021 12:44:23: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 12:44:27: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 12:44:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.05_peaks.xls INFO @ Wed, 08 Dec 2021 12:44:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 12:44:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.05_summits.bed INFO @ Wed, 08 Dec 2021 12:44:30: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (7781 records, 4 fields): 8 millis CompletedMACS2peakCalling 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 12:44:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.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 12:44:42: #1 read tag files... INFO @ Wed, 08 Dec 2021 12:44:42: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 12:44:48: 1000000 INFO @ Wed, 08 Dec 2021 12:44:53: #1 tag size is determined as 76 bps INFO @ Wed, 08 Dec 2021 12:44:53: #1 tag size = 76 INFO @ Wed, 08 Dec 2021 12:44:53: #1 total tags in treatment: 1710053 INFO @ Wed, 08 Dec 2021 12:44:53: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 12:44:53: #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 12:44:53: #1 tags after filtering in treatment: 1710053 INFO @ Wed, 08 Dec 2021 12:44:53: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 12:44:53: #1 finished! INFO @ Wed, 08 Dec 2021 12:44:53: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 12:44:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 12:44:53: #2 number of paired peaks: 3307 INFO @ Wed, 08 Dec 2021 12:44:53: start model_add_line... INFO @ Wed, 08 Dec 2021 12:44:53: start X-correlation... INFO @ Wed, 08 Dec 2021 12:44:53: end of X-cor INFO @ Wed, 08 Dec 2021 12:44:53: #2 finished! INFO @ Wed, 08 Dec 2021 12:44:53: #2 predicted fragment length is 145 bps INFO @ Wed, 08 Dec 2021 12:44:53: #2 alternative fragment length(s) may be 145 bps INFO @ Wed, 08 Dec 2021 12:44:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.10_model.r WARNING @ Wed, 08 Dec 2021 12:44:53: #2 Since the d (145) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Wed, 08 Dec 2021 12:44:53: #2 You may need to consider one of the other alternative d(s): 145 WARNING @ Wed, 08 Dec 2021 12:44:53: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Wed, 08 Dec 2021 12:44:53: #3 Call peaks... INFO @ Wed, 08 Dec 2021 12:44:53: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 12:44:57: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 12:44:59: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.10_peaks.xls INFO @ Wed, 08 Dec 2021 12:44:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 12:44:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.10_summits.bed INFO @ Wed, 08 Dec 2021 12:44:59: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4464 records, 4 fields): 5 millis CompletedMACS2peakCalling 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 12:45:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.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 12:45:12: #1 read tag files... INFO @ Wed, 08 Dec 2021 12:45:12: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 12:45:20: 1000000 BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 12:45:25: #1 tag size is determined as 76 bps INFO @ Wed, 08 Dec 2021 12:45:25: #1 tag size = 76 INFO @ Wed, 08 Dec 2021 12:45:25: #1 total tags in treatment: 1710053 INFO @ Wed, 08 Dec 2021 12:45:25: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 12:45:25: #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 12:45:25: #1 tags after filtering in treatment: 1710053 INFO @ Wed, 08 Dec 2021 12:45:25: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 12:45:25: #1 finished! INFO @ Wed, 08 Dec 2021 12:45:25: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 12:45:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 12:45:25: #2 number of paired peaks: 3307 INFO @ Wed, 08 Dec 2021 12:45:25: start model_add_line... INFO @ Wed, 08 Dec 2021 12:45:25: start X-correlation... INFO @ Wed, 08 Dec 2021 12:45:25: end of X-cor INFO @ Wed, 08 Dec 2021 12:45:25: #2 finished! INFO @ Wed, 08 Dec 2021 12:45:25: #2 predicted fragment length is 145 bps INFO @ Wed, 08 Dec 2021 12:45:25: #2 alternative fragment length(s) may be 145 bps INFO @ Wed, 08 Dec 2021 12:45:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.20_model.r WARNING @ Wed, 08 Dec 2021 12:45:25: #2 Since the d (145) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Wed, 08 Dec 2021 12:45:25: #2 You may need to consider one of the other alternative d(s): 145 WARNING @ Wed, 08 Dec 2021 12:45:25: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Wed, 08 Dec 2021 12:45:25: #3 Call peaks... INFO @ Wed, 08 Dec 2021 12:45:25: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 12:45:29: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 12:45:31: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.20_peaks.xls INFO @ Wed, 08 Dec 2021 12:45:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 12:45:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6717205/SRX6717205.20_summits.bed INFO @ Wed, 08 Dec 2021 12:45:31: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (2241 records, 4 fields): 4 millis CompletedMACS2peakCalling