Job ID = 14171795 SRX = SRX9986144 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: 00:06:32 24995034 reads; of these: 24995034 (100.00%) were unpaired; of these: 1750096 (7.00%) aligned 0 times 13247582 (53.00%) aligned exactly 1 time 9997356 (40.00%) aligned >1 times 93.00% overall alignment rate Time searching: 00:06:32 Overall time: 00:06:32 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 12 files... [bam_rmdupse_core] 6994553 / 23244938 = 0.3009 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 13:04:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.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, 11 Dec 2021 13:04:07: #1 read tag files... INFO @ Sat, 11 Dec 2021 13:04:07: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 13:04:11: 1000000 INFO @ Sat, 11 Dec 2021 13:04:16: 2000000 INFO @ Sat, 11 Dec 2021 13:04:20: 3000000 INFO @ Sat, 11 Dec 2021 13:04:25: 4000000 INFO @ Sat, 11 Dec 2021 13:04:29: 5000000 INFO @ Sat, 11 Dec 2021 13:04:34: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 13:04:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.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, 11 Dec 2021 13:04:37: #1 read tag files... INFO @ Sat, 11 Dec 2021 13:04:37: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 13:04:39: 7000000 INFO @ Sat, 11 Dec 2021 13:04:41: 1000000 INFO @ Sat, 11 Dec 2021 13:04:43: 8000000 INFO @ Sat, 11 Dec 2021 13:04:46: 2000000 INFO @ Sat, 11 Dec 2021 13:04:48: 9000000 INFO @ Sat, 11 Dec 2021 13:04:51: 3000000 INFO @ Sat, 11 Dec 2021 13:04:53: 10000000 INFO @ Sat, 11 Dec 2021 13:04:55: 4000000 INFO @ Sat, 11 Dec 2021 13:04:57: 11000000 INFO @ Sat, 11 Dec 2021 13:05:00: 5000000 INFO @ Sat, 11 Dec 2021 13:05:02: 12000000 INFO @ Sat, 11 Dec 2021 13:05:05: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 13:05:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.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, 11 Dec 2021 13:05:07: #1 read tag files... INFO @ Sat, 11 Dec 2021 13:05:07: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 13:05:07: 13000000 INFO @ Sat, 11 Dec 2021 13:05:09: 7000000 INFO @ Sat, 11 Dec 2021 13:05:12: 14000000 INFO @ Sat, 11 Dec 2021 13:05:12: 1000000 INFO @ Sat, 11 Dec 2021 13:05:14: 8000000 INFO @ Sat, 11 Dec 2021 13:05:17: 15000000 INFO @ Sat, 11 Dec 2021 13:05:18: 2000000 INFO @ Sat, 11 Dec 2021 13:05:19: 9000000 INFO @ Sat, 11 Dec 2021 13:05:22: 16000000 INFO @ Sat, 11 Dec 2021 13:05:23: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 13:05:23: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 13:05:23: #1 total tags in treatment: 16250385 INFO @ Sat, 11 Dec 2021 13:05:23: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 13:05:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 13:05:23: 3000000 INFO @ Sat, 11 Dec 2021 13:05:24: 10000000 INFO @ Sat, 11 Dec 2021 13:05:24: #1 tags after filtering in treatment: 16250319 INFO @ Sat, 11 Dec 2021 13:05:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 13:05:24: #1 finished! INFO @ Sat, 11 Dec 2021 13:05:24: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 13:05:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 13:05:25: #2 number of paired peaks: 1239 INFO @ Sat, 11 Dec 2021 13:05:25: start model_add_line... INFO @ Sat, 11 Dec 2021 13:05:25: start X-correlation... INFO @ Sat, 11 Dec 2021 13:05:25: end of X-cor INFO @ Sat, 11 Dec 2021 13:05:25: #2 finished! INFO @ Sat, 11 Dec 2021 13:05:25: #2 predicted fragment length is 48 bps INFO @ Sat, 11 Dec 2021 13:05:25: #2 alternative fragment length(s) may be 2,48 bps INFO @ Sat, 11 Dec 2021 13:05:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.05_model.r WARNING @ Sat, 11 Dec 2021 13:05:25: #2 Since the d (48) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 13:05:25: #2 You may need to consider one of the other alternative d(s): 2,48 WARNING @ Sat, 11 Dec 2021 13:05:25: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 13:05:25: #3 Call peaks... INFO @ Sat, 11 Dec 2021 13:05:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 13:05:28: 11000000 INFO @ Sat, 11 Dec 2021 13:05:28: 4000000 INFO @ Sat, 11 Dec 2021 13:05:33: 12000000 INFO @ Sat, 11 Dec 2021 13:05:34: 5000000 INFO @ Sat, 11 Dec 2021 13:05:38: 13000000 INFO @ Sat, 11 Dec 2021 13:05:39: 6000000 INFO @ Sat, 11 Dec 2021 13:05:43: 14000000 INFO @ Sat, 11 Dec 2021 13:05:44: 7000000 INFO @ Sat, 11 Dec 2021 13:05:48: 15000000 INFO @ Sat, 11 Dec 2021 13:05:50: 8000000 INFO @ Sat, 11 Dec 2021 13:05:53: 16000000 INFO @ Sat, 11 Dec 2021 13:05:54: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 13:05:54: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 13:05:54: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 13:05:54: #1 total tags in treatment: 16250385 INFO @ Sat, 11 Dec 2021 13:05:54: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 13:05:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 13:05:55: #1 tags after filtering in treatment: 16250319 INFO @ Sat, 11 Dec 2021 13:05:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 13:05:55: #1 finished! INFO @ Sat, 11 Dec 2021 13:05:55: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 13:05:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 13:05:55: 9000000 INFO @ Sat, 11 Dec 2021 13:05:56: #2 number of paired peaks: 1239 INFO @ Sat, 11 Dec 2021 13:05:56: start model_add_line... INFO @ Sat, 11 Dec 2021 13:05:56: start X-correlation... INFO @ Sat, 11 Dec 2021 13:05:56: end of X-cor INFO @ Sat, 11 Dec 2021 13:05:56: #2 finished! INFO @ Sat, 11 Dec 2021 13:05:56: #2 predicted fragment length is 48 bps INFO @ Sat, 11 Dec 2021 13:05:56: #2 alternative fragment length(s) may be 2,48 bps INFO @ Sat, 11 Dec 2021 13:05:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.10_model.r WARNING @ Sat, 11 Dec 2021 13:05:56: #2 Since the d (48) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 13:05:56: #2 You may need to consider one of the other alternative d(s): 2,48 WARNING @ Sat, 11 Dec 2021 13:05:56: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 13:05:56: #3 Call peaks... INFO @ Sat, 11 Dec 2021 13:05:56: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 13:06:01: 10000000 INFO @ Sat, 11 Dec 2021 13:06:06: 11000000 INFO @ Sat, 11 Dec 2021 13:06:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.05_peaks.xls INFO @ Sat, 11 Dec 2021 13:06:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 13:06:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.05_summits.bed INFO @ Sat, 11 Dec 2021 13:06:08: Done! pass1 - making usageList (631 chroms): 1 millis pass2 - checking and writing primary data (2927 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 13:06:11: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 13:06:17: 13000000 INFO @ Sat, 11 Dec 2021 13:06:22: 14000000 INFO @ Sat, 11 Dec 2021 13:06:25: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 13:06:28: 15000000 INFO @ Sat, 11 Dec 2021 13:06:33: 16000000 INFO @ Sat, 11 Dec 2021 13:06:34: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 13:06:34: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 13:06:34: #1 total tags in treatment: 16250385 INFO @ Sat, 11 Dec 2021 13:06:34: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 13:06:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 13:06:35: #1 tags after filtering in treatment: 16250319 INFO @ Sat, 11 Dec 2021 13:06:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 13:06:35: #1 finished! INFO @ Sat, 11 Dec 2021 13:06:35: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 13:06:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 13:06:36: #2 number of paired peaks: 1239 INFO @ Sat, 11 Dec 2021 13:06:36: start model_add_line... INFO @ Sat, 11 Dec 2021 13:06:36: start X-correlation... INFO @ Sat, 11 Dec 2021 13:06:36: end of X-cor INFO @ Sat, 11 Dec 2021 13:06:36: #2 finished! INFO @ Sat, 11 Dec 2021 13:06:36: #2 predicted fragment length is 48 bps INFO @ Sat, 11 Dec 2021 13:06:36: #2 alternative fragment length(s) may be 2,48 bps INFO @ Sat, 11 Dec 2021 13:06:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.20_model.r WARNING @ Sat, 11 Dec 2021 13:06:36: #2 Since the d (48) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 13:06:36: #2 You may need to consider one of the other alternative d(s): 2,48 WARNING @ Sat, 11 Dec 2021 13:06:36: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 13:06:36: #3 Call peaks... INFO @ Sat, 11 Dec 2021 13:06:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 13:06:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.10_peaks.xls INFO @ Sat, 11 Dec 2021 13:06:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 13:06:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.10_summits.bed INFO @ Sat, 11 Dec 2021 13:06:40: Done! pass1 - making usageList (543 chroms): 2 millis pass2 - checking and writing primary data (2183 records, 4 fields): 16 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 13:07:05: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 13:07:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.20_peaks.xls INFO @ Sat, 11 Dec 2021 13:07:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 13:07:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986144/SRX9986144.20_summits.bed INFO @ Sat, 11 Dec 2021 13:07:19: Done! pass1 - making usageList (383 chroms): 1 millis pass2 - checking and writing primary data (959 records, 4 fields): 11 millis CompletedMACS2peakCalling