Job ID = 12265295 SRX = SRX5010754 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 36571843 spots for SRR8191179/SRR8191179.sra Written 36571843 spots for SRR8191179/SRR8191179.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265448 ("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: 00:10:14 36571843 reads; of these: 36571843 (100.00%) were unpaired; of these: 1215796 (3.32%) aligned 0 times 22403206 (61.26%) aligned exactly 1 time 12952841 (35.42%) aligned >1 times 96.68% overall alignment rate Time searching: 00:10:14 Overall time: 00:10:14 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 16 files... [bam_rmdupse_core] 20488958 / 35356047 = 0.5795 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 06:43:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.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 06:43:16: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:43:16: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:43:21: 1000000 INFO @ Sat, 03 Apr 2021 06:43:26: 2000000 INFO @ Sat, 03 Apr 2021 06:43:31: 3000000 INFO @ Sat, 03 Apr 2021 06:43:36: 4000000 INFO @ Sat, 03 Apr 2021 06:43:41: 5000000 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 06:43:46: 6000000 INFO @ Sat, 03 Apr 2021 06:43:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.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 06:43:47: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:43:47: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:43:51: 7000000 INFO @ Sat, 03 Apr 2021 06:43:52: 1000000 INFO @ Sat, 03 Apr 2021 06:43:56: 8000000 INFO @ Sat, 03 Apr 2021 06:43:57: 2000000 INFO @ Sat, 03 Apr 2021 06:44:01: 9000000 INFO @ Sat, 03 Apr 2021 06:44:02: 3000000 INFO @ Sat, 03 Apr 2021 06:44:07: 10000000 INFO @ Sat, 03 Apr 2021 06:44:07: 4000000 INFO @ Sat, 03 Apr 2021 06:44:12: 11000000 INFO @ Sat, 03 Apr 2021 06:44:13: 5000000 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 06:44:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.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 06:44:17: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:44:17: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:44:17: 12000000 INFO @ Sat, 03 Apr 2021 06:44:18: 6000000 INFO @ Sat, 03 Apr 2021 06:44:22: 1000000 INFO @ Sat, 03 Apr 2021 06:44:22: 13000000 INFO @ Sat, 03 Apr 2021 06:44:23: 7000000 INFO @ Sat, 03 Apr 2021 06:44:27: 14000000 INFO @ Sat, 03 Apr 2021 06:44:27: 2000000 INFO @ Sat, 03 Apr 2021 06:44:29: 8000000 INFO @ Sat, 03 Apr 2021 06:44:32: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:44:32: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:44:32: #1 total tags in treatment: 14867089 INFO @ Sat, 03 Apr 2021 06:44:32: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:44:32: #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 06:44:32: #1 tags after filtering in treatment: 14867089 INFO @ Sat, 03 Apr 2021 06:44:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:44:32: #1 finished! INFO @ Sat, 03 Apr 2021 06:44:32: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:44:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:44:33: 3000000 INFO @ Sat, 03 Apr 2021 06:44:33: #2 number of paired peaks: 1244 INFO @ Sat, 03 Apr 2021 06:44:33: start model_add_line... INFO @ Sat, 03 Apr 2021 06:44:33: start X-correlation... INFO @ Sat, 03 Apr 2021 06:44:33: end of X-cor INFO @ Sat, 03 Apr 2021 06:44:33: #2 finished! INFO @ Sat, 03 Apr 2021 06:44:33: #2 predicted fragment length is 78 bps INFO @ Sat, 03 Apr 2021 06:44:33: #2 alternative fragment length(s) may be 78 bps INFO @ Sat, 03 Apr 2021 06:44:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.05_model.r WARNING @ Sat, 03 Apr 2021 06:44:33: #2 Since the d (78) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:44:33: #2 You may need to consider one of the other alternative d(s): 78 WARNING @ Sat, 03 Apr 2021 06:44:33: #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 06:44:33: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:44:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:44:34: 9000000 INFO @ Sat, 03 Apr 2021 06:44:38: 4000000 INFO @ Sat, 03 Apr 2021 06:44:39: 10000000 INFO @ Sat, 03 Apr 2021 06:44:43: 5000000 INFO @ Sat, 03 Apr 2021 06:44:44: 11000000 INFO @ Sat, 03 Apr 2021 06:44:48: 6000000 INFO @ Sat, 03 Apr 2021 06:44:50: 12000000 INFO @ Sat, 03 Apr 2021 06:44:54: 7000000 INFO @ Sat, 03 Apr 2021 06:44:55: 13000000 INFO @ Sat, 03 Apr 2021 06:44:59: 8000000 INFO @ Sat, 03 Apr 2021 06:45:00: 14000000 INFO @ Sat, 03 Apr 2021 06:45:04: 9000000 INFO @ Sat, 03 Apr 2021 06:45:04: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:45:04: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:45:04: #1 total tags in treatment: 14867089 INFO @ Sat, 03 Apr 2021 06:45:04: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:45:04: #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 06:45:05: #1 tags after filtering in treatment: 14867089 INFO @ Sat, 03 Apr 2021 06:45:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:45:05: #1 finished! INFO @ Sat, 03 Apr 2021 06:45:05: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:45:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:45:05: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:45:06: #2 number of paired peaks: 1244 INFO @ Sat, 03 Apr 2021 06:45:06: start model_add_line... INFO @ Sat, 03 Apr 2021 06:45:06: start X-correlation... INFO @ Sat, 03 Apr 2021 06:45:06: end of X-cor INFO @ Sat, 03 Apr 2021 06:45:06: #2 finished! INFO @ Sat, 03 Apr 2021 06:45:06: #2 predicted fragment length is 78 bps INFO @ Sat, 03 Apr 2021 06:45:06: #2 alternative fragment length(s) may be 78 bps INFO @ Sat, 03 Apr 2021 06:45:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.10_model.r WARNING @ Sat, 03 Apr 2021 06:45:06: #2 Since the d (78) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:45:06: #2 You may need to consider one of the other alternative d(s): 78 WARNING @ Sat, 03 Apr 2021 06:45:06: #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 06:45:06: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:45:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:45:09: 10000000 INFO @ Sat, 03 Apr 2021 06:45:14: 11000000 INFO @ Sat, 03 Apr 2021 06:45:19: 12000000 INFO @ Sat, 03 Apr 2021 06:45:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:45:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:45:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.05_summits.bed INFO @ Sat, 03 Apr 2021 06:45:22: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (13771 records, 4 fields): 14 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:45:24: 13000000 INFO @ Sat, 03 Apr 2021 06:45:29: 14000000 INFO @ Sat, 03 Apr 2021 06:45:33: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:45:33: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:45:33: #1 total tags in treatment: 14867089 INFO @ Sat, 03 Apr 2021 06:45:33: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:45:33: #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 06:45:33: #1 tags after filtering in treatment: 14867089 INFO @ Sat, 03 Apr 2021 06:45:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:45:33: #1 finished! INFO @ Sat, 03 Apr 2021 06:45:33: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:45:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:45:34: #2 number of paired peaks: 1244 INFO @ Sat, 03 Apr 2021 06:45:34: start model_add_line... INFO @ Sat, 03 Apr 2021 06:45:34: start X-correlation... INFO @ Sat, 03 Apr 2021 06:45:35: end of X-cor INFO @ Sat, 03 Apr 2021 06:45:35: #2 finished! INFO @ Sat, 03 Apr 2021 06:45:35: #2 predicted fragment length is 78 bps INFO @ Sat, 03 Apr 2021 06:45:35: #2 alternative fragment length(s) may be 78 bps INFO @ Sat, 03 Apr 2021 06:45:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.20_model.r WARNING @ Sat, 03 Apr 2021 06:45:35: #2 Since the d (78) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:45:35: #2 You may need to consider one of the other alternative d(s): 78 WARNING @ Sat, 03 Apr 2021 06:45:35: #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 06:45:35: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:45:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:45:39: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:45:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:45:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:45:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.10_summits.bed INFO @ Sat, 03 Apr 2021 06:45:57: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (8155 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:46:07: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:46:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:46:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:46:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010754/SRX5010754.20_summits.bed INFO @ Sat, 03 Apr 2021 06:46:25: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3463 records, 4 fields): 5 millis CompletedMACS2peakCalling