Job ID = 12265816 SRX = SRX7281003 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:06:40 20549016 reads; of these: 20549016 (100.00%) were unpaired; of these: 9009360 (43.84%) aligned 0 times 10419930 (50.71%) aligned exactly 1 time 1119726 (5.45%) aligned >1 times 56.16% overall alignment rate Time searching: 00:06:40 Overall time: 00:06:40 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 4393650 / 11539656 = 0.3807 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 08:37:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.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 08:37:32: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:37:32: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:37:39: 1000000 INFO @ Sat, 03 Apr 2021 08:37:45: 2000000 INFO @ Sat, 03 Apr 2021 08:37:52: 3000000 INFO @ Sat, 03 Apr 2021 08:37:58: 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 08:38:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.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 08:38:02: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:38:02: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:38:05: 5000000 INFO @ Sat, 03 Apr 2021 08:38:09: 1000000 INFO @ Sat, 03 Apr 2021 08:38:12: 6000000 INFO @ Sat, 03 Apr 2021 08:38:16: 2000000 INFO @ Sat, 03 Apr 2021 08:38:20: 7000000 INFO @ Sat, 03 Apr 2021 08:38:21: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:38:21: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:38:21: #1 total tags in treatment: 7146006 INFO @ Sat, 03 Apr 2021 08:38:21: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:38:21: #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 08:38:22: #1 tags after filtering in treatment: 7145961 INFO @ Sat, 03 Apr 2021 08:38:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:38:22: #1 finished! INFO @ Sat, 03 Apr 2021 08:38:22: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:38:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:38:22: 3000000 INFO @ Sat, 03 Apr 2021 08:38:22: #2 number of paired peaks: 3337 INFO @ Sat, 03 Apr 2021 08:38:22: start model_add_line... INFO @ Sat, 03 Apr 2021 08:38:22: start X-correlation... INFO @ Sat, 03 Apr 2021 08:38:22: end of X-cor INFO @ Sat, 03 Apr 2021 08:38:22: #2 finished! INFO @ Sat, 03 Apr 2021 08:38:22: #2 predicted fragment length is 93 bps INFO @ Sat, 03 Apr 2021 08:38:22: #2 alternative fragment length(s) may be 93 bps INFO @ Sat, 03 Apr 2021 08:38:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.05_model.r WARNING @ Sat, 03 Apr 2021 08:38:22: #2 Since the d (93) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:38:22: #2 You may need to consider one of the other alternative d(s): 93 WARNING @ Sat, 03 Apr 2021 08:38:22: #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 08:38:22: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:38:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:38:27: 4000000 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 08:38:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.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 08:38:32: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:38:32: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:38:33: 5000000 INFO @ Sat, 03 Apr 2021 08:38:39: 1000000 INFO @ Sat, 03 Apr 2021 08:38:39: 6000000 INFO @ Sat, 03 Apr 2021 08:38:40: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:38:45: 2000000 INFO @ Sat, 03 Apr 2021 08:38:45: 7000000 INFO @ Sat, 03 Apr 2021 08:38:46: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:38:46: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:38:46: #1 total tags in treatment: 7146006 INFO @ Sat, 03 Apr 2021 08:38:46: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:38:46: #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 08:38:46: #1 tags after filtering in treatment: 7145961 INFO @ Sat, 03 Apr 2021 08:38:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:38:46: #1 finished! INFO @ Sat, 03 Apr 2021 08:38:46: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:38:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:38:47: #2 number of paired peaks: 3337 INFO @ Sat, 03 Apr 2021 08:38:47: start model_add_line... INFO @ Sat, 03 Apr 2021 08:38:47: start X-correlation... INFO @ Sat, 03 Apr 2021 08:38:47: end of X-cor INFO @ Sat, 03 Apr 2021 08:38:47: #2 finished! INFO @ Sat, 03 Apr 2021 08:38:47: #2 predicted fragment length is 93 bps INFO @ Sat, 03 Apr 2021 08:38:47: #2 alternative fragment length(s) may be 93 bps INFO @ Sat, 03 Apr 2021 08:38:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.10_model.r WARNING @ Sat, 03 Apr 2021 08:38:47: #2 Since the d (93) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:38:47: #2 You may need to consider one of the other alternative d(s): 93 WARNING @ Sat, 03 Apr 2021 08:38:47: #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 08:38:47: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:38:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:38:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.05_peaks.xls INFO @ Sat, 03 Apr 2021 08:38:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:38:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.05_summits.bed INFO @ Sat, 03 Apr 2021 08:38:51: Done! INFO @ Sat, 03 Apr 2021 08:38:51: 3000000 pass1 - making usageList (178 chroms): 3 millis pass2 - checking and writing primary data (18154 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:38:56: 4000000 INFO @ Sat, 03 Apr 2021 08:39:02: 5000000 INFO @ Sat, 03 Apr 2021 08:39:02: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 08:39:08: 6000000 INFO @ Sat, 03 Apr 2021 08:39:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.10_peaks.xls INFO @ Sat, 03 Apr 2021 08:39:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:39:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.10_summits.bed INFO @ Sat, 03 Apr 2021 08:39:10: Done! pass1 - making usageList (111 chroms): 2 millis pass2 - checking and writing primary data (10913 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:39:13: 7000000 INFO @ Sat, 03 Apr 2021 08:39:14: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:39:14: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:39:14: #1 total tags in treatment: 7146006 INFO @ Sat, 03 Apr 2021 08:39:14: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:39:14: #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 08:39:14: #1 tags after filtering in treatment: 7145961 INFO @ Sat, 03 Apr 2021 08:39:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:39:14: #1 finished! INFO @ Sat, 03 Apr 2021 08:39:14: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:39:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:39:15: #2 number of paired peaks: 3337 INFO @ Sat, 03 Apr 2021 08:39:15: start model_add_line... INFO @ Sat, 03 Apr 2021 08:39:15: start X-correlation... INFO @ Sat, 03 Apr 2021 08:39:15: end of X-cor INFO @ Sat, 03 Apr 2021 08:39:15: #2 finished! INFO @ Sat, 03 Apr 2021 08:39:15: #2 predicted fragment length is 93 bps INFO @ Sat, 03 Apr 2021 08:39:15: #2 alternative fragment length(s) may be 93 bps INFO @ Sat, 03 Apr 2021 08:39:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.20_model.r WARNING @ Sat, 03 Apr 2021 08:39:15: #2 Since the d (93) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:39:15: #2 You may need to consider one of the other alternative d(s): 93 WARNING @ Sat, 03 Apr 2021 08:39:15: #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 08:39:15: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:39:15: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 08:39:31: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:39:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.20_peaks.xls INFO @ Sat, 03 Apr 2021 08:39:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:39:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281003/SRX7281003.20_summits.bed INFO @ Sat, 03 Apr 2021 08:39:40: Done! pass1 - making usageList (63 chroms): 1 millis pass2 - checking and writing primary data (4429 records, 4 fields): 7 millis CompletedMACS2peakCalling