Job ID = 12265924 SRX = SRX7281030 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: 00:06:25 20982516 reads; of these: 20982516 (100.00%) were unpaired; of these: 7165257 (34.15%) aligned 0 times 12541173 (59.77%) aligned exactly 1 time 1276086 (6.08%) aligned >1 times 65.85% overall alignment rate Time searching: 00:06:25 Overall time: 00:06:25 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] 8311203 / 13817259 = 0.6015 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 08:47:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.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 08:47:27: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:47:27: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:47:33: 1000000 INFO @ Sat, 03 Apr 2021 08:47:39: 2000000 INFO @ Sat, 03 Apr 2021 08:47:46: 3000000 INFO @ Sat, 03 Apr 2021 08:47:52: 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 08:47:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.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 08:47:57: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:47:57: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:47:59: 5000000 INFO @ Sat, 03 Apr 2021 08:48:03: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:48:03: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:48:03: #1 total tags in treatment: 5506056 INFO @ Sat, 03 Apr 2021 08:48:03: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:48:03: #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 08:48:03: #1 tags after filtering in treatment: 5505810 INFO @ Sat, 03 Apr 2021 08:48:03: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:48:03: #1 finished! INFO @ Sat, 03 Apr 2021 08:48:03: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:48:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:48:04: 1000000 INFO @ Sat, 03 Apr 2021 08:48:04: #2 number of paired peaks: 7010 INFO @ Sat, 03 Apr 2021 08:48:04: start model_add_line... INFO @ Sat, 03 Apr 2021 08:48:04: start X-correlation... INFO @ Sat, 03 Apr 2021 08:48:04: end of X-cor INFO @ Sat, 03 Apr 2021 08:48:04: #2 finished! INFO @ Sat, 03 Apr 2021 08:48:04: #2 predicted fragment length is 99 bps INFO @ Sat, 03 Apr 2021 08:48:04: #2 alternative fragment length(s) may be 99 bps INFO @ Sat, 03 Apr 2021 08:48:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.05_model.r WARNING @ Sat, 03 Apr 2021 08:48:04: #2 Since the d (99) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:48:04: #2 You may need to consider one of the other alternative d(s): 99 WARNING @ Sat, 03 Apr 2021 08:48:04: #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 08:48:04: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:48:04: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:48:11: 2000000 INFO @ Sat, 03 Apr 2021 08:48:17: 3000000 INFO @ Sat, 03 Apr 2021 08:48:18: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:48:24: 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 08:48:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.05_peaks.xls INFO @ Sat, 03 Apr 2021 08:48:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:48:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.05_summits.bed INFO @ Sat, 03 Apr 2021 08:48:26: Done! pass1 - making usageList (155 chroms): 3 millis pass2 - checking and writing primary data (17526 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:48:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.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 08:48:27: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:48:27: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:48:32: 5000000 INFO @ Sat, 03 Apr 2021 08:48:34: 1000000 INFO @ Sat, 03 Apr 2021 08:48:35: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:48:35: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:48:35: #1 total tags in treatment: 5506056 INFO @ Sat, 03 Apr 2021 08:48:35: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:48:35: #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 08:48:36: #1 tags after filtering in treatment: 5505810 INFO @ Sat, 03 Apr 2021 08:48:36: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:48:36: #1 finished! INFO @ Sat, 03 Apr 2021 08:48:36: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:48:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:48:36: #2 number of paired peaks: 7010 INFO @ Sat, 03 Apr 2021 08:48:36: start model_add_line... INFO @ Sat, 03 Apr 2021 08:48:37: start X-correlation... INFO @ Sat, 03 Apr 2021 08:48:37: end of X-cor INFO @ Sat, 03 Apr 2021 08:48:37: #2 finished! INFO @ Sat, 03 Apr 2021 08:48:37: #2 predicted fragment length is 99 bps INFO @ Sat, 03 Apr 2021 08:48:37: #2 alternative fragment length(s) may be 99 bps INFO @ Sat, 03 Apr 2021 08:48:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.10_model.r WARNING @ Sat, 03 Apr 2021 08:48:37: #2 Since the d (99) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:48:37: #2 You may need to consider one of the other alternative d(s): 99 WARNING @ Sat, 03 Apr 2021 08:48:37: #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 08:48:37: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:48:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:48:41: 2000000 INFO @ Sat, 03 Apr 2021 08:48:47: 3000000 INFO @ Sat, 03 Apr 2021 08:48:51: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:48:54: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 08:48:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.10_peaks.xls INFO @ Sat, 03 Apr 2021 08:48:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:48:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.10_summits.bed INFO @ Sat, 03 Apr 2021 08:48:59: Done! pass1 - making usageList (121 chroms): 2 millis pass2 - checking and writing primary data (12177 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:49:01: 5000000 INFO @ Sat, 03 Apr 2021 08:49:04: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:49:04: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:49:04: #1 total tags in treatment: 5506056 INFO @ Sat, 03 Apr 2021 08:49:04: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:49:04: #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 08:49:04: #1 tags after filtering in treatment: 5505810 INFO @ Sat, 03 Apr 2021 08:49:04: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:49:04: #1 finished! INFO @ Sat, 03 Apr 2021 08:49:04: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:49:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:49:05: #2 number of paired peaks: 7010 INFO @ Sat, 03 Apr 2021 08:49:05: start model_add_line... INFO @ Sat, 03 Apr 2021 08:49:05: start X-correlation... INFO @ Sat, 03 Apr 2021 08:49:05: end of X-cor INFO @ Sat, 03 Apr 2021 08:49:05: #2 finished! INFO @ Sat, 03 Apr 2021 08:49:05: #2 predicted fragment length is 99 bps INFO @ Sat, 03 Apr 2021 08:49:05: #2 alternative fragment length(s) may be 99 bps INFO @ Sat, 03 Apr 2021 08:49:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.20_model.r WARNING @ Sat, 03 Apr 2021 08:49:05: #2 Since the d (99) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:49:05: #2 You may need to consider one of the other alternative d(s): 99 WARNING @ Sat, 03 Apr 2021 08:49:05: #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 08:49:05: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:49:05: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 08:49:19: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:49:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.20_peaks.xls INFO @ Sat, 03 Apr 2021 08:49:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:49:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281030/SRX7281030.20_summits.bed INFO @ Sat, 03 Apr 2021 08:49:26: Done! pass1 - making usageList (93 chroms): 1 millis pass2 - checking and writing primary data (6446 records, 4 fields): 12 millis CompletedMACS2peakCalling