Job ID = 12265306 SRX = SRX5010765 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 50532615 spots for SRR8191190/SRR8191190.sra Written 50532615 spots for SRR8191190/SRR8191190.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265513 ("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: 00:18:24 50532615 reads; of these: 50532615 (100.00%) were unpaired; of these: 2044897 (4.05%) aligned 0 times 24922679 (49.32%) aligned exactly 1 time 23565039 (46.63%) aligned >1 times 95.95% overall alignment rate Time searching: 00:18:24 Overall time: 00:18:24 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 20 files... [bam_rmdupse_core] 33127200 / 48487718 = 0.6832 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 07:01:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.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 07:01:47: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:01:47: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:01:56: 1000000 INFO @ Sat, 03 Apr 2021 07:02:05: 2000000 INFO @ Sat, 03 Apr 2021 07:02:13: 3000000 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 07:02:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.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 07:02:17: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:02:17: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:02:23: 4000000 INFO @ Sat, 03 Apr 2021 07:02:27: 1000000 INFO @ Sat, 03 Apr 2021 07:02:32: 5000000 INFO @ Sat, 03 Apr 2021 07:02:37: 2000000 INFO @ Sat, 03 Apr 2021 07:02:42: 6000000 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 07:02:47: 3000000 INFO @ Sat, 03 Apr 2021 07:02:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.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 07:02:47: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:02:47: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:02:52: 7000000 INFO @ Sat, 03 Apr 2021 07:02:55: 1000000 INFO @ Sat, 03 Apr 2021 07:02:57: 4000000 INFO @ Sat, 03 Apr 2021 07:03:03: 2000000 INFO @ Sat, 03 Apr 2021 07:03:03: 8000000 INFO @ Sat, 03 Apr 2021 07:03:07: 5000000 INFO @ Sat, 03 Apr 2021 07:03:10: 3000000 INFO @ Sat, 03 Apr 2021 07:03:13: 9000000 INFO @ Sat, 03 Apr 2021 07:03:17: 6000000 INFO @ Sat, 03 Apr 2021 07:03:18: 4000000 INFO @ Sat, 03 Apr 2021 07:03:23: 10000000 INFO @ Sat, 03 Apr 2021 07:03:26: 5000000 INFO @ Sat, 03 Apr 2021 07:03:28: 7000000 INFO @ Sat, 03 Apr 2021 07:03:34: 11000000 INFO @ Sat, 03 Apr 2021 07:03:35: 6000000 INFO @ Sat, 03 Apr 2021 07:03:39: 8000000 INFO @ Sat, 03 Apr 2021 07:03:43: 7000000 INFO @ Sat, 03 Apr 2021 07:03:45: 12000000 INFO @ Sat, 03 Apr 2021 07:03:50: 9000000 INFO @ Sat, 03 Apr 2021 07:03:52: 8000000 INFO @ Sat, 03 Apr 2021 07:03:56: 13000000 INFO @ Sat, 03 Apr 2021 07:04:00: 10000000 INFO @ Sat, 03 Apr 2021 07:04:00: 9000000 INFO @ Sat, 03 Apr 2021 07:04:06: 14000000 INFO @ Sat, 03 Apr 2021 07:04:09: 10000000 INFO @ Sat, 03 Apr 2021 07:04:11: 11000000 INFO @ Sat, 03 Apr 2021 07:04:17: 15000000 INFO @ Sat, 03 Apr 2021 07:04:17: 11000000 INFO @ Sat, 03 Apr 2021 07:04:21: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:04:21: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:04:21: #1 total tags in treatment: 15360518 INFO @ Sat, 03 Apr 2021 07:04:21: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:04:21: #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 07:04:21: #1 tags after filtering in treatment: 15360518 INFO @ Sat, 03 Apr 2021 07:04:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:04:21: #1 finished! INFO @ Sat, 03 Apr 2021 07:04:21: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:04:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:04:21: 12000000 INFO @ Sat, 03 Apr 2021 07:04:23: #2 number of paired peaks: 1377 INFO @ Sat, 03 Apr 2021 07:04:23: start model_add_line... INFO @ Sat, 03 Apr 2021 07:04:23: start X-correlation... INFO @ Sat, 03 Apr 2021 07:04:23: end of X-cor INFO @ Sat, 03 Apr 2021 07:04:23: #2 finished! INFO @ Sat, 03 Apr 2021 07:04:23: #2 predicted fragment length is 61 bps INFO @ Sat, 03 Apr 2021 07:04:23: #2 alternative fragment length(s) may be 61 bps INFO @ Sat, 03 Apr 2021 07:04:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.05_model.r WARNING @ Sat, 03 Apr 2021 07:04:23: #2 Since the d (61) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:04:23: #2 You may need to consider one of the other alternative d(s): 61 WARNING @ Sat, 03 Apr 2021 07:04:23: #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 07:04:23: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:04:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:04:25: 12000000 INFO @ Sat, 03 Apr 2021 07:04:31: 13000000 INFO @ Sat, 03 Apr 2021 07:04:34: 13000000 INFO @ Sat, 03 Apr 2021 07:04:40: 14000000 INFO @ Sat, 03 Apr 2021 07:04:42: 14000000 INFO @ Sat, 03 Apr 2021 07:04:49: 15000000 INFO @ Sat, 03 Apr 2021 07:04:50: 15000000 INFO @ Sat, 03 Apr 2021 07:04:52: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:04:52: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:04:52: #1 total tags in treatment: 15360518 INFO @ Sat, 03 Apr 2021 07:04:52: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:04:52: #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 07:04:53: #1 tags after filtering in treatment: 15360518 INFO @ Sat, 03 Apr 2021 07:04:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:04:53: #1 finished! INFO @ Sat, 03 Apr 2021 07:04:53: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:04:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:04:53: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:04:53: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:04:53: #1 total tags in treatment: 15360518 INFO @ Sat, 03 Apr 2021 07:04:53: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:04:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:04:54: #1 tags after filtering in treatment: 15360518 INFO @ Sat, 03 Apr 2021 07:04:54: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:04:54: #1 finished! INFO @ Sat, 03 Apr 2021 07:04:54: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:04:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:04:54: #2 number of paired peaks: 1377 INFO @ Sat, 03 Apr 2021 07:04:54: start model_add_line... INFO @ Sat, 03 Apr 2021 07:04:54: start X-correlation... INFO @ Sat, 03 Apr 2021 07:04:54: end of X-cor INFO @ Sat, 03 Apr 2021 07:04:54: #2 finished! INFO @ Sat, 03 Apr 2021 07:04:54: #2 predicted fragment length is 61 bps INFO @ Sat, 03 Apr 2021 07:04:54: #2 alternative fragment length(s) may be 61 bps INFO @ Sat, 03 Apr 2021 07:04:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.10_model.r WARNING @ Sat, 03 Apr 2021 07:04:54: #2 Since the d (61) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:04:54: #2 You may need to consider one of the other alternative d(s): 61 WARNING @ Sat, 03 Apr 2021 07:04:54: #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 07:04:54: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:04:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:04:55: #2 number of paired peaks: 1377 INFO @ Sat, 03 Apr 2021 07:04:55: start model_add_line... INFO @ Sat, 03 Apr 2021 07:04:55: start X-correlation... INFO @ Sat, 03 Apr 2021 07:04:55: end of X-cor INFO @ Sat, 03 Apr 2021 07:04:55: #2 finished! INFO @ Sat, 03 Apr 2021 07:04:55: #2 predicted fragment length is 61 bps INFO @ Sat, 03 Apr 2021 07:04:55: #2 alternative fragment length(s) may be 61 bps INFO @ Sat, 03 Apr 2021 07:04:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.20_model.r WARNING @ Sat, 03 Apr 2021 07:04:56: #2 Since the d (61) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:04:56: #2 You may need to consider one of the other alternative d(s): 61 WARNING @ Sat, 03 Apr 2021 07:04:56: #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 07:04:56: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:04:56: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:05:07: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:05:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:05:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:05:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.05_summits.bed INFO @ Sat, 03 Apr 2021 07:05:32: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (15124 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:05:38: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:05:41: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 07:06:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:06:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:06:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.10_summits.bed INFO @ Sat, 03 Apr 2021 07:06:02: Done! pass1 - making usageList (14 chroms): 4 millis pass2 - checking and writing primary data (7981 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:06:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:06:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:06:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010765/SRX5010765.20_summits.bed INFO @ Sat, 03 Apr 2021 07:06:06: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (2195 records, 4 fields): 8 millis CompletedMACS2peakCalling