Job ID = 12265411 SRX = SRX5010750 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: 00:03:55 14507566 reads; of these: 14507566 (100.00%) were unpaired; of these: 548029 (3.78%) aligned 0 times 11432110 (78.80%) aligned exactly 1 time 2527427 (17.42%) aligned >1 times 96.22% overall alignment rate Time searching: 00:03:55 Overall time: 00:03:55 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] 7483809 / 13959537 = 0.5361 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 07:00:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.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 07:00:37: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:00:37: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:00:43: 1000000 INFO @ Sat, 03 Apr 2021 07:00:48: 2000000 INFO @ Sat, 03 Apr 2021 07:00:53: 3000000 INFO @ Sat, 03 Apr 2021 07:00:59: 4000000 INFO @ Sat, 03 Apr 2021 07:01:04: 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 07:01:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.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 07:01:07: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:01:07: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:01:10: 6000000 INFO @ Sat, 03 Apr 2021 07:01:13: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:01:13: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:01:13: #1 total tags in treatment: 6475728 INFO @ Sat, 03 Apr 2021 07:01:13: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:01:13: #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 07:01:13: 1000000 INFO @ Sat, 03 Apr 2021 07:01:13: #1 tags after filtering in treatment: 6475572 INFO @ Sat, 03 Apr 2021 07:01:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:01:13: #1 finished! INFO @ Sat, 03 Apr 2021 07:01:13: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:01:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:01:14: #2 number of paired peaks: 3015 INFO @ Sat, 03 Apr 2021 07:01:14: start model_add_line... INFO @ Sat, 03 Apr 2021 07:01:14: start X-correlation... INFO @ Sat, 03 Apr 2021 07:01:14: end of X-cor INFO @ Sat, 03 Apr 2021 07:01:14: #2 finished! INFO @ Sat, 03 Apr 2021 07:01:14: #2 predicted fragment length is 82 bps INFO @ Sat, 03 Apr 2021 07:01:14: #2 alternative fragment length(s) may be 82 bps INFO @ Sat, 03 Apr 2021 07:01:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.05_model.r WARNING @ Sat, 03 Apr 2021 07:01:14: #2 Since the d (82) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:01:14: #2 You may need to consider one of the other alternative d(s): 82 WARNING @ Sat, 03 Apr 2021 07:01:14: #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 07:01:14: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:01:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:01:18: 2000000 INFO @ Sat, 03 Apr 2021 07:01:24: 3000000 INFO @ Sat, 03 Apr 2021 07:01:29: 4000000 INFO @ Sat, 03 Apr 2021 07:01:30: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:01:34: 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 07:01:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.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 07:01:37: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:01:37: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:01:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:01:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:01:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.05_summits.bed INFO @ Sat, 03 Apr 2021 07:01:39: Done! pass1 - making usageList (257 chroms): 2 millis pass2 - checking and writing primary data (9608 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:01:40: 6000000 INFO @ Sat, 03 Apr 2021 07:01:43: 1000000 INFO @ Sat, 03 Apr 2021 07:01:43: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:01:43: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:01:43: #1 total tags in treatment: 6475728 INFO @ Sat, 03 Apr 2021 07:01:43: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:01:43: #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 07:01:44: #1 tags after filtering in treatment: 6475572 INFO @ Sat, 03 Apr 2021 07:01:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:01:44: #1 finished! INFO @ Sat, 03 Apr 2021 07:01:44: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:01:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:01:44: #2 number of paired peaks: 3015 INFO @ Sat, 03 Apr 2021 07:01:44: start model_add_line... INFO @ Sat, 03 Apr 2021 07:01:44: start X-correlation... INFO @ Sat, 03 Apr 2021 07:01:44: end of X-cor INFO @ Sat, 03 Apr 2021 07:01:44: #2 finished! INFO @ Sat, 03 Apr 2021 07:01:44: #2 predicted fragment length is 82 bps INFO @ Sat, 03 Apr 2021 07:01:44: #2 alternative fragment length(s) may be 82 bps INFO @ Sat, 03 Apr 2021 07:01:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.10_model.r WARNING @ Sat, 03 Apr 2021 07:01:44: #2 Since the d (82) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:01:44: #2 You may need to consider one of the other alternative d(s): 82 WARNING @ Sat, 03 Apr 2021 07:01:44: #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 07:01:44: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:01:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:01:48: 2000000 INFO @ Sat, 03 Apr 2021 07:01:54: 3000000 INFO @ Sat, 03 Apr 2021 07:01:59: 4000000 INFO @ Sat, 03 Apr 2021 07:02:00: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:02:05: 5000000 INFO @ Sat, 03 Apr 2021 07:02:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:02:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:02:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.10_summits.bed INFO @ Sat, 03 Apr 2021 07:02:09: Done! pass1 - making usageList (167 chroms): 1 millis pass2 - checking and writing primary data (5383 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:02:11: 6000000 INFO @ Sat, 03 Apr 2021 07:02:13: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:02:13: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:02:13: #1 total tags in treatment: 6475728 INFO @ Sat, 03 Apr 2021 07:02:13: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:02:13: #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 07:02:14: #1 tags after filtering in treatment: 6475572 INFO @ Sat, 03 Apr 2021 07:02:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:02:14: #1 finished! INFO @ Sat, 03 Apr 2021 07:02:14: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:02:14: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:02:14: #2 number of paired peaks: 3015 INFO @ Sat, 03 Apr 2021 07:02:14: start model_add_line... INFO @ Sat, 03 Apr 2021 07:02:15: start X-correlation... INFO @ Sat, 03 Apr 2021 07:02:15: end of X-cor INFO @ Sat, 03 Apr 2021 07:02:15: #2 finished! INFO @ Sat, 03 Apr 2021 07:02:15: #2 predicted fragment length is 82 bps INFO @ Sat, 03 Apr 2021 07:02:15: #2 alternative fragment length(s) may be 82 bps INFO @ Sat, 03 Apr 2021 07:02:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.20_model.r WARNING @ Sat, 03 Apr 2021 07:02:15: #2 Since the d (82) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:02:15: #2 You may need to consider one of the other alternative d(s): 82 WARNING @ Sat, 03 Apr 2021 07:02:15: #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 07:02:15: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:02:15: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 07:02:32: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:02:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:02:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:02:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010750/SRX5010750.20_summits.bed INFO @ Sat, 03 Apr 2021 07:02:40: Done! pass1 - making usageList (123 chroms): 1 millis pass2 - checking and writing primary data (2140 records, 4 fields): 7 millis CompletedMACS2peakCalling