Job ID = 12265303 SRX = SRX5010762 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 22607002 spots for SRR8191187/SRR8191187.sra Written 22607002 spots for SRR8191187/SRR8191187.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265445 ("srTdm6") 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: 00:06:35 22607002 reads; of these: 22607002 (100.00%) were unpaired; of these: 650753 (2.88%) aligned 0 times 12455474 (55.10%) aligned exactly 1 time 9500775 (42.03%) aligned >1 times 97.12% overall alignment rate Time searching: 00:06:35 Overall time: 00:06:35 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 11890326 / 21956249 = 0.5415 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:41:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sat, 03 Apr 2021 06:41:47: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:41:47: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:41:55: 1000000 INFO @ Sat, 03 Apr 2021 06:42:01: 2000000 INFO @ Sat, 03 Apr 2021 06:42:07: 3000000 INFO @ Sat, 03 Apr 2021 06:42:14: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:42:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sat, 03 Apr 2021 06:42:17: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:42:17: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:42:20: 5000000 INFO @ Sat, 03 Apr 2021 06:42:25: 1000000 INFO @ Sat, 03 Apr 2021 06:42:28: 6000000 INFO @ Sat, 03 Apr 2021 06:42:34: 2000000 INFO @ Sat, 03 Apr 2021 06:42:35: 7000000 INFO @ Sat, 03 Apr 2021 06:42:42: 3000000 INFO @ Sat, 03 Apr 2021 06:42:42: 8000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:42:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sat, 03 Apr 2021 06:42:48: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:42:48: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:42:49: 4000000 INFO @ Sat, 03 Apr 2021 06:42:49: 9000000 INFO @ Sat, 03 Apr 2021 06:42:55: 1000000 INFO @ Sat, 03 Apr 2021 06:42:56: 5000000 INFO @ Sat, 03 Apr 2021 06:42:57: 10000000 INFO @ Sat, 03 Apr 2021 06:42:57: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:42:57: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:42:57: #1 total tags in treatment: 10065923 INFO @ Sat, 03 Apr 2021 06:42:57: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:42:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:42:57: #1 tags after filtering in treatment: 10065923 INFO @ Sat, 03 Apr 2021 06:42:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:42:57: #1 finished! INFO @ Sat, 03 Apr 2021 06:42:57: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:42:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:42:58: #2 number of paired peaks: 1428 INFO @ Sat, 03 Apr 2021 06:42:58: start model_add_line... INFO @ Sat, 03 Apr 2021 06:42:59: start X-correlation... INFO @ Sat, 03 Apr 2021 06:42:59: end of X-cor INFO @ Sat, 03 Apr 2021 06:42:59: #2 finished! INFO @ Sat, 03 Apr 2021 06:42:59: #2 predicted fragment length is 83 bps INFO @ Sat, 03 Apr 2021 06:42:59: #2 alternative fragment length(s) may be 83 bps INFO @ Sat, 03 Apr 2021 06:42:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.05_model.r WARNING @ Sat, 03 Apr 2021 06:42:59: #2 Since the d (83) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:42:59: #2 You may need to consider one of the other alternative d(s): 83 WARNING @ Sat, 03 Apr 2021 06:42:59: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:42:59: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:42:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:43:02: 2000000 INFO @ Sat, 03 Apr 2021 06:43:03: 6000000 INFO @ Sat, 03 Apr 2021 06:43:09: 3000000 INFO @ Sat, 03 Apr 2021 06:43:10: 7000000 INFO @ Sat, 03 Apr 2021 06:43:16: 4000000 INFO @ Sat, 03 Apr 2021 06:43:18: 8000000 INFO @ Sat, 03 Apr 2021 06:43:22: 5000000 INFO @ Sat, 03 Apr 2021 06:43:23: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:43:25: 9000000 INFO @ Sat, 03 Apr 2021 06:43:29: 6000000 INFO @ Sat, 03 Apr 2021 06:43:33: 10000000 INFO @ Sat, 03 Apr 2021 06:43:33: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:43:33: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:43:33: #1 total tags in treatment: 10065923 INFO @ Sat, 03 Apr 2021 06:43:33: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:43:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:43:33: #1 tags after filtering in treatment: 10065923 INFO @ Sat, 03 Apr 2021 06:43:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:43:33: #1 finished! INFO @ Sat, 03 Apr 2021 06:43:33: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:43:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:43:34: #2 number of paired peaks: 1428 INFO @ Sat, 03 Apr 2021 06:43:34: start model_add_line... INFO @ Sat, 03 Apr 2021 06:43:34: start X-correlation... INFO @ Sat, 03 Apr 2021 06:43:35: end of X-cor INFO @ Sat, 03 Apr 2021 06:43:35: #2 finished! INFO @ Sat, 03 Apr 2021 06:43:35: #2 predicted fragment length is 83 bps INFO @ Sat, 03 Apr 2021 06:43:35: #2 alternative fragment length(s) may be 83 bps INFO @ Sat, 03 Apr 2021 06:43:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.10_model.r WARNING @ Sat, 03 Apr 2021 06:43:35: #2 Since the d (83) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:43:35: #2 You may need to consider one of the other alternative d(s): 83 WARNING @ Sat, 03 Apr 2021 06:43:35: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:43:35: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:43:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:43:35: 7000000 INFO @ Sat, 03 Apr 2021 06:43:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:43:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:43:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.05_summits.bed INFO @ Sat, 03 Apr 2021 06:43:36: Done! pass1 - making usageList (15 chroms): 15 millis pass2 - checking and writing primary data (9434 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:43:42: 8000000 INFO @ Sat, 03 Apr 2021 06:43:48: 9000000 INFO @ Sat, 03 Apr 2021 06:43:54: 10000000 INFO @ Sat, 03 Apr 2021 06:43:55: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:43:55: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:43:55: #1 total tags in treatment: 10065923 INFO @ Sat, 03 Apr 2021 06:43:55: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:43:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:43:55: #1 tags after filtering in treatment: 10065923 INFO @ Sat, 03 Apr 2021 06:43:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:43:55: #1 finished! INFO @ Sat, 03 Apr 2021 06:43:55: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:43:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:43:55: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:43:56: #2 number of paired peaks: 1428 INFO @ Sat, 03 Apr 2021 06:43:56: start model_add_line... INFO @ Sat, 03 Apr 2021 06:43:56: start X-correlation... INFO @ Sat, 03 Apr 2021 06:43:56: end of X-cor INFO @ Sat, 03 Apr 2021 06:43:56: #2 finished! INFO @ Sat, 03 Apr 2021 06:43:56: #2 predicted fragment length is 83 bps INFO @ Sat, 03 Apr 2021 06:43:56: #2 alternative fragment length(s) may be 83 bps INFO @ Sat, 03 Apr 2021 06:43:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.20_model.r WARNING @ Sat, 03 Apr 2021 06:43:56: #2 Since the d (83) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:43:56: #2 You may need to consider one of the other alternative d(s): 83 WARNING @ Sat, 03 Apr 2021 06:43:56: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:43:56: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:43:56: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:44:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:44:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:44:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.10_summits.bed INFO @ Sat, 03 Apr 2021 06:44:06: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (5534 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:44:16: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:44:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:44:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:44:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010762/SRX5010762.20_summits.bed INFO @ Sat, 03 Apr 2021 06:44:26: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2555 records, 4 fields): 6 millis CompletedMACS2peakCalling BigWig に変換しました。