Job ID = 12265281 SRX = SRX5010740 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 18888376 spots for SRR8191165/SRR8191165.sra Written 18888376 spots for SRR8191165/SRR8191165.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265419 ("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: 00:05:51 18888376 reads; of these: 18888376 (100.00%) were unpaired; of these: 539296 (2.86%) aligned 0 times 7177139 (38.00%) aligned exactly 1 time 11171941 (59.15%) aligned >1 times 97.14% overall alignment rate Time searching: 00:05:51 Overall time: 00:05:51 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 8 files... [bam_rmdupse_core] 11731668 / 18349080 = 0.6394 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 06:35:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.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 06:35:15: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:35:15: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:35:24: 1000000 INFO @ Sat, 03 Apr 2021 06:35:34: 2000000 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 06:35:43: 3000000 INFO @ Sat, 03 Apr 2021 06:35:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.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 06:35:44: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:35:44: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:35:53: 1000000 INFO @ Sat, 03 Apr 2021 06:35:53: 4000000 INFO @ Sat, 03 Apr 2021 06:36:01: 2000000 INFO @ Sat, 03 Apr 2021 06:36:03: 5000000 INFO @ Sat, 03 Apr 2021 06:36:09: 3000000 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 06:36:12: 6000000 INFO @ Sat, 03 Apr 2021 06:36:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.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 06:36:15: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:36:15: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:36:18: 4000000 INFO @ Sat, 03 Apr 2021 06:36:18: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:36:18: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:36:18: #1 total tags in treatment: 6617412 INFO @ Sat, 03 Apr 2021 06:36:18: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:36:18: #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 06:36:18: #1 tags after filtering in treatment: 6617412 INFO @ Sat, 03 Apr 2021 06:36:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:36:18: #1 finished! INFO @ Sat, 03 Apr 2021 06:36:18: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:36:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:36:19: #2 number of paired peaks: 1293 INFO @ Sat, 03 Apr 2021 06:36:19: start model_add_line... INFO @ Sat, 03 Apr 2021 06:36:19: start X-correlation... INFO @ Sat, 03 Apr 2021 06:36:19: end of X-cor INFO @ Sat, 03 Apr 2021 06:36:19: #2 finished! INFO @ Sat, 03 Apr 2021 06:36:19: #2 predicted fragment length is 86 bps INFO @ Sat, 03 Apr 2021 06:36:19: #2 alternative fragment length(s) may be 86 bps INFO @ Sat, 03 Apr 2021 06:36:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.05_model.r WARNING @ Sat, 03 Apr 2021 06:36:19: #2 Since the d (86) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:36:19: #2 You may need to consider one of the other alternative d(s): 86 WARNING @ Sat, 03 Apr 2021 06:36:19: #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 06:36:19: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:36:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:36:23: 1000000 INFO @ Sat, 03 Apr 2021 06:36:26: 5000000 INFO @ Sat, 03 Apr 2021 06:36:32: 2000000 INFO @ Sat, 03 Apr 2021 06:36:34: 6000000 INFO @ Sat, 03 Apr 2021 06:36:38: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:36:38: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:36:38: #1 total tags in treatment: 6617412 INFO @ Sat, 03 Apr 2021 06:36:38: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:36:38: #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 06:36:38: #1 tags after filtering in treatment: 6617412 INFO @ Sat, 03 Apr 2021 06:36:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:36:38: #1 finished! INFO @ Sat, 03 Apr 2021 06:36:38: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:36:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:36:39: #2 number of paired peaks: 1293 INFO @ Sat, 03 Apr 2021 06:36:39: start model_add_line... INFO @ Sat, 03 Apr 2021 06:36:39: start X-correlation... INFO @ Sat, 03 Apr 2021 06:36:39: end of X-cor INFO @ Sat, 03 Apr 2021 06:36:39: #2 finished! INFO @ Sat, 03 Apr 2021 06:36:39: #2 predicted fragment length is 86 bps INFO @ Sat, 03 Apr 2021 06:36:39: #2 alternative fragment length(s) may be 86 bps INFO @ Sat, 03 Apr 2021 06:36:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.10_model.r WARNING @ Sat, 03 Apr 2021 06:36:39: #2 Since the d (86) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:36:39: #2 You may need to consider one of the other alternative d(s): 86 WARNING @ Sat, 03 Apr 2021 06:36:39: #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 06:36:39: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:36:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:36:40: 3000000 INFO @ Sat, 03 Apr 2021 06:36:41: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:36:48: 4000000 INFO @ Sat, 03 Apr 2021 06:36:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:36:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:36:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.05_summits.bed INFO @ Sat, 03 Apr 2021 06:36:52: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (8973 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:36:55: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:36:59: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:37:03: 6000000 INFO @ Sat, 03 Apr 2021 06:37:08: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:37:08: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:37:08: #1 total tags in treatment: 6617412 INFO @ Sat, 03 Apr 2021 06:37:08: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:37:08: #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 06:37:08: #1 tags after filtering in treatment: 6617412 INFO @ Sat, 03 Apr 2021 06:37:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:37:08: #1 finished! INFO @ Sat, 03 Apr 2021 06:37:08: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:37:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:37:09: #2 number of paired peaks: 1293 INFO @ Sat, 03 Apr 2021 06:37:09: start model_add_line... INFO @ Sat, 03 Apr 2021 06:37:09: start X-correlation... INFO @ Sat, 03 Apr 2021 06:37:09: end of X-cor INFO @ Sat, 03 Apr 2021 06:37:09: #2 finished! INFO @ Sat, 03 Apr 2021 06:37:09: #2 predicted fragment length is 86 bps INFO @ Sat, 03 Apr 2021 06:37:09: #2 alternative fragment length(s) may be 86 bps INFO @ Sat, 03 Apr 2021 06:37:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.20_model.r WARNING @ Sat, 03 Apr 2021 06:37:09: #2 Since the d (86) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:37:09: #2 You may need to consider one of the other alternative d(s): 86 WARNING @ Sat, 03 Apr 2021 06:37:09: #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 06:37:09: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:37:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:37:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:37:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:37:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.10_summits.bed INFO @ Sat, 03 Apr 2021 06:37:11: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4362 records, 4 fields): 8 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:37:29: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:37:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:37:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:37:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010740/SRX5010740.20_summits.bed INFO @ Sat, 03 Apr 2021 06:37:39: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (1235 records, 4 fields): 4 millis CompletedMACS2peakCalling