Job ID = 12265413 SRX = SRX5010737 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: 00:06:14 19484964 reads; of these: 19484964 (100.00%) were unpaired; of these: 765640 (3.93%) aligned 0 times 15554698 (79.83%) aligned exactly 1 time 3164626 (16.24%) aligned >1 times 96.07% overall alignment rate Time searching: 00:06:14 Overall time: 00:06:14 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 10818332 / 18719324 = 0.5779 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 07:05:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.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 07:05:31: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:05:31: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:05:37: 1000000 INFO @ Sat, 03 Apr 2021 07:05:43: 2000000 INFO @ Sat, 03 Apr 2021 07:05:49: 3000000 INFO @ Sat, 03 Apr 2021 07:05:55: 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 07:06:01: 5000000 INFO @ Sat, 03 Apr 2021 07:06:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.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 07:06:01: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:06:01: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:06:07: 6000000 INFO @ Sat, 03 Apr 2021 07:06:07: 1000000 INFO @ Sat, 03 Apr 2021 07:06:13: 2000000 INFO @ Sat, 03 Apr 2021 07:06:14: 7000000 INFO @ Sat, 03 Apr 2021 07:06:19: 3000000 INFO @ Sat, 03 Apr 2021 07:06:20: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:06:20: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:06:20: #1 total tags in treatment: 7900992 INFO @ Sat, 03 Apr 2021 07:06:20: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:06:20: #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 07:06:21: #1 tags after filtering in treatment: 7900850 INFO @ Sat, 03 Apr 2021 07:06:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:06:21: #1 finished! INFO @ Sat, 03 Apr 2021 07:06:21: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:06:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:06:22: #2 number of paired peaks: 3144 INFO @ Sat, 03 Apr 2021 07:06:22: start model_add_line... INFO @ Sat, 03 Apr 2021 07:06:22: start X-correlation... INFO @ Sat, 03 Apr 2021 07:06:22: end of X-cor INFO @ Sat, 03 Apr 2021 07:06:22: #2 finished! INFO @ Sat, 03 Apr 2021 07:06:22: #2 predicted fragment length is 80 bps INFO @ Sat, 03 Apr 2021 07:06:22: #2 alternative fragment length(s) may be 80 bps INFO @ Sat, 03 Apr 2021 07:06:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.05_model.r WARNING @ Sat, 03 Apr 2021 07:06:22: #2 Since the d (80) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:06:22: #2 You may need to consider one of the other alternative d(s): 80 WARNING @ Sat, 03 Apr 2021 07:06:22: #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 07:06:22: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:06:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:06:26: 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 07:06:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.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 07:06:31: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:06:31: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:06:34: 5000000 INFO @ Sat, 03 Apr 2021 07:06:38: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:06:39: 1000000 INFO @ Sat, 03 Apr 2021 07:06:42: 6000000 INFO @ Sat, 03 Apr 2021 07:06:47: 2000000 INFO @ Sat, 03 Apr 2021 07:06:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:06:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:06:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.05_summits.bed INFO @ Sat, 03 Apr 2021 07:06:47: Done! pass1 - making usageList (236 chroms): 3 millis pass2 - checking and writing primary data (11418 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:06:51: 7000000 INFO @ Sat, 03 Apr 2021 07:06:55: 3000000 INFO @ Sat, 03 Apr 2021 07:06:58: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:06:58: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:06:58: #1 total tags in treatment: 7900992 INFO @ Sat, 03 Apr 2021 07:06:58: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:06:58: #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 07:06:59: #1 tags after filtering in treatment: 7900850 INFO @ Sat, 03 Apr 2021 07:06:59: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:06:59: #1 finished! INFO @ Sat, 03 Apr 2021 07:06:59: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:06:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:07:00: #2 number of paired peaks: 3144 INFO @ Sat, 03 Apr 2021 07:07:00: start model_add_line... INFO @ Sat, 03 Apr 2021 07:07:00: start X-correlation... INFO @ Sat, 03 Apr 2021 07:07:00: end of X-cor INFO @ Sat, 03 Apr 2021 07:07:00: #2 finished! INFO @ Sat, 03 Apr 2021 07:07:00: #2 predicted fragment length is 80 bps INFO @ Sat, 03 Apr 2021 07:07:00: #2 alternative fragment length(s) may be 80 bps INFO @ Sat, 03 Apr 2021 07:07:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.10_model.r WARNING @ Sat, 03 Apr 2021 07:07:00: #2 Since the d (80) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:07:00: #2 You may need to consider one of the other alternative d(s): 80 WARNING @ Sat, 03 Apr 2021 07:07:00: #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 07:07:00: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:07:00: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:07:04: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:07:12: 5000000 INFO @ Sat, 03 Apr 2021 07:07:17: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:07:21: 6000000 INFO @ Sat, 03 Apr 2021 07:07:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:07:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:07:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.10_summits.bed INFO @ Sat, 03 Apr 2021 07:07:27: Done! pass1 - making usageList (164 chroms): 2 millis pass2 - checking and writing primary data (6987 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:07:31: 7000000 BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 07:07:39: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:07:39: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:07:39: #1 total tags in treatment: 7900992 INFO @ Sat, 03 Apr 2021 07:07:39: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:07:39: #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 07:07:39: #1 tags after filtering in treatment: 7900850 INFO @ Sat, 03 Apr 2021 07:07:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:07:39: #1 finished! INFO @ Sat, 03 Apr 2021 07:07:39: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:07:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:07:40: #2 number of paired peaks: 3144 INFO @ Sat, 03 Apr 2021 07:07:40: start model_add_line... INFO @ Sat, 03 Apr 2021 07:07:40: start X-correlation... INFO @ Sat, 03 Apr 2021 07:07:40: end of X-cor INFO @ Sat, 03 Apr 2021 07:07:40: #2 finished! INFO @ Sat, 03 Apr 2021 07:07:40: #2 predicted fragment length is 80 bps INFO @ Sat, 03 Apr 2021 07:07:40: #2 alternative fragment length(s) may be 80 bps INFO @ Sat, 03 Apr 2021 07:07:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.20_model.r WARNING @ Sat, 03 Apr 2021 07:07:40: #2 Since the d (80) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:07:40: #2 You may need to consider one of the other alternative d(s): 80 WARNING @ Sat, 03 Apr 2021 07:07:40: #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 07:07:40: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:07:40: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:07:58: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:08:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:08:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:08:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010737/SRX5010737.20_summits.bed INFO @ Sat, 03 Apr 2021 07:08:08: Done! pass1 - making usageList (122 chroms): 2 millis pass2 - checking and writing primary data (3089 records, 4 fields): 12 millis CompletedMACS2peakCalling