Job ID = 12264841 SRX = SRX2661683 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 17349229 spots for SRR5366414/SRR5366414.sra Written 17349229 spots for SRR5366414/SRR5366414.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265054 ("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: 00:04:17 17349229 reads; of these: 17349229 (100.00%) were unpaired; of these: 1135938 (6.55%) aligned 0 times 13436158 (77.45%) aligned exactly 1 time 2777133 (16.01%) aligned >1 times 93.45% overall alignment rate Time searching: 00:04:17 Overall time: 00:04:17 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] 6161057 / 16213291 = 0.3800 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 06:03:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.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 06:03:02: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:03:02: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:03:10: 1000000 INFO @ Sat, 03 Apr 2021 06:03:18: 2000000 INFO @ Sat, 03 Apr 2021 06:03:27: 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 06:03:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.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 06:03:31: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:03:31: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:03:34: 4000000 INFO @ Sat, 03 Apr 2021 06:03:39: 1000000 INFO @ Sat, 03 Apr 2021 06:03:42: 5000000 INFO @ Sat, 03 Apr 2021 06:03:46: 2000000 INFO @ Sat, 03 Apr 2021 06:03:51: 6000000 INFO @ Sat, 03 Apr 2021 06:03:53: 3000000 INFO @ Sat, 03 Apr 2021 06:03:59: 7000000 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 06:04:01: 4000000 INFO @ Sat, 03 Apr 2021 06:04:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.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 06:04:01: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:04:01: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:04:07: 8000000 INFO @ Sat, 03 Apr 2021 06:04:08: 5000000 INFO @ Sat, 03 Apr 2021 06:04:11: 1000000 INFO @ Sat, 03 Apr 2021 06:04:15: 9000000 INFO @ Sat, 03 Apr 2021 06:04:15: 6000000 INFO @ Sat, 03 Apr 2021 06:04:21: 2000000 INFO @ Sat, 03 Apr 2021 06:04:23: 7000000 INFO @ Sat, 03 Apr 2021 06:04:24: 10000000 INFO @ Sat, 03 Apr 2021 06:04:24: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:04:24: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:04:24: #1 total tags in treatment: 10052234 INFO @ Sat, 03 Apr 2021 06:04:24: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:04:24: #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 06:04:24: #1 tags after filtering in treatment: 10052234 INFO @ Sat, 03 Apr 2021 06:04:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:04:24: #1 finished! INFO @ Sat, 03 Apr 2021 06:04:24: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:04:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:04:26: #2 number of paired peaks: 2338 INFO @ Sat, 03 Apr 2021 06:04:26: start model_add_line... INFO @ Sat, 03 Apr 2021 06:04:26: start X-correlation... INFO @ Sat, 03 Apr 2021 06:04:26: end of X-cor INFO @ Sat, 03 Apr 2021 06:04:26: #2 finished! INFO @ Sat, 03 Apr 2021 06:04:26: #2 predicted fragment length is 77 bps INFO @ Sat, 03 Apr 2021 06:04:26: #2 alternative fragment length(s) may be 77 bps INFO @ Sat, 03 Apr 2021 06:04:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.05_model.r WARNING @ Sat, 03 Apr 2021 06:04:26: #2 Since the d (77) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:04:26: #2 You may need to consider one of the other alternative d(s): 77 WARNING @ Sat, 03 Apr 2021 06:04:26: #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 06:04:26: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:04:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:04:30: 8000000 INFO @ Sat, 03 Apr 2021 06:04:31: 3000000 INFO @ Sat, 03 Apr 2021 06:04:38: 9000000 INFO @ Sat, 03 Apr 2021 06:04:40: 4000000 INFO @ Sat, 03 Apr 2021 06:04:45: 10000000 INFO @ Sat, 03 Apr 2021 06:04:46: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:04:46: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:04:46: #1 total tags in treatment: 10052234 INFO @ Sat, 03 Apr 2021 06:04:46: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:04:46: #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 06:04:46: #1 tags after filtering in treatment: 10052234 INFO @ Sat, 03 Apr 2021 06:04:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:04:46: #1 finished! INFO @ Sat, 03 Apr 2021 06:04:46: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:04:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:04:47: #2 number of paired peaks: 2338 INFO @ Sat, 03 Apr 2021 06:04:47: start model_add_line... INFO @ Sat, 03 Apr 2021 06:04:47: start X-correlation... INFO @ Sat, 03 Apr 2021 06:04:47: end of X-cor INFO @ Sat, 03 Apr 2021 06:04:47: #2 finished! INFO @ Sat, 03 Apr 2021 06:04:47: #2 predicted fragment length is 77 bps INFO @ Sat, 03 Apr 2021 06:04:47: #2 alternative fragment length(s) may be 77 bps INFO @ Sat, 03 Apr 2021 06:04:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.10_model.r WARNING @ Sat, 03 Apr 2021 06:04:47: #2 Since the d (77) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:04:47: #2 You may need to consider one of the other alternative d(s): 77 WARNING @ Sat, 03 Apr 2021 06:04:47: #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 06:04:47: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:04:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:04:50: 5000000 INFO @ Sat, 03 Apr 2021 06:04:55: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:04:59: 6000000 INFO @ Sat, 03 Apr 2021 06:05:08: 7000000 INFO @ Sat, 03 Apr 2021 06:05:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:05:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:05:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.05_summits.bed INFO @ Sat, 03 Apr 2021 06:05:12: Done! pass1 - making usageList (15 chroms): 7 millis pass2 - checking and writing primary data (17975 records, 4 fields): 32 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:05:16: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:05:16: 8000000 INFO @ Sat, 03 Apr 2021 06:05:25: 9000000 INFO @ Sat, 03 Apr 2021 06:05:32: 10000000 INFO @ Sat, 03 Apr 2021 06:05:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:05:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:05:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.10_summits.bed INFO @ Sat, 03 Apr 2021 06:05:33: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:05:33: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:05:33: #1 total tags in treatment: 10052234 INFO @ Sat, 03 Apr 2021 06:05:33: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:05:33: #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 06:05:33: Done! INFO @ Sat, 03 Apr 2021 06:05:33: #1 tags after filtering in treatment: 10052234 INFO @ Sat, 03 Apr 2021 06:05:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:05:33: #1 finished! INFO @ Sat, 03 Apr 2021 06:05:33: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:05:33: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (10765 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:05:34: #2 number of paired peaks: 2338 INFO @ Sat, 03 Apr 2021 06:05:34: start model_add_line... INFO @ Sat, 03 Apr 2021 06:05:34: start X-correlation... INFO @ Sat, 03 Apr 2021 06:05:34: end of X-cor INFO @ Sat, 03 Apr 2021 06:05:34: #2 finished! INFO @ Sat, 03 Apr 2021 06:05:34: #2 predicted fragment length is 77 bps INFO @ Sat, 03 Apr 2021 06:05:34: #2 alternative fragment length(s) may be 77 bps INFO @ Sat, 03 Apr 2021 06:05:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.20_model.r WARNING @ Sat, 03 Apr 2021 06:05:34: #2 Since the d (77) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:05:34: #2 You may need to consider one of the other alternative d(s): 77 WARNING @ Sat, 03 Apr 2021 06:05:34: #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 06:05:34: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:05:34: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:06:03: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:06:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:06:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:06:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2661683/SRX2661683.20_summits.bed INFO @ Sat, 03 Apr 2021 06:06:19: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (3662 records, 4 fields): 16 millis CompletedMACS2peakCalling