Job ID = 6626631 SRX = SRX7262544 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 32571781 spots for SRR10582174/SRR10582174.sra Written 32571781 spots for SRR10582174/SRR10582174.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626761 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:07 32571781 reads; of these: 32571781 (100.00%) were unpaired; of these: 31663102 (97.21%) aligned 0 times 762282 (2.34%) aligned exactly 1 time 146397 (0.45%) aligned >1 times 2.79% overall alignment rate Time searching: 00:04:07 Overall time: 00:04:07 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_rmdupse_core] 267569 / 908679 = 0.2945 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:09:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.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 @ Tue, 14 Jul 2020 08:09:56: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:09:56: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:10:01: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:10:01: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:10:01: #1 total tags in treatment: 641110 INFO @ Tue, 14 Jul 2020 08:10:01: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:10:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:10:01: #1 tags after filtering in treatment: 641110 INFO @ Tue, 14 Jul 2020 08:10:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:10:01: #1 finished! INFO @ Tue, 14 Jul 2020 08:10:01: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:10:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:10:01: #2 number of paired peaks: 1832 INFO @ Tue, 14 Jul 2020 08:10:01: start model_add_line... INFO @ Tue, 14 Jul 2020 08:10:01: start X-correlation... INFO @ Tue, 14 Jul 2020 08:10:01: end of X-cor INFO @ Tue, 14 Jul 2020 08:10:01: #2 finished! INFO @ Tue, 14 Jul 2020 08:10:01: #2 predicted fragment length is 77 bps INFO @ Tue, 14 Jul 2020 08:10:01: #2 alternative fragment length(s) may be 77,169 bps INFO @ Tue, 14 Jul 2020 08:10:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.05_model.r WARNING @ Tue, 14 Jul 2020 08:10:01: #2 Since the d (77) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 08:10:01: #2 You may need to consider one of the other alternative d(s): 77,169 WARNING @ Tue, 14 Jul 2020 08:10:01: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 08:10:01: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:10:01: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:10:02: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:10:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:10:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:10:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.05_summits.bed INFO @ Tue, 14 Jul 2020 08:10:03: Done! pass1 - making usageList (10 chroms): 1 millis pass2 - checking and writing primary data (151 records, 4 fields): 1 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:10:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.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 @ Tue, 14 Jul 2020 08:10:26: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:10:26: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:10:31: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:10:31: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:10:31: #1 total tags in treatment: 641110 INFO @ Tue, 14 Jul 2020 08:10:31: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:10:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:10:31: #1 tags after filtering in treatment: 641110 INFO @ Tue, 14 Jul 2020 08:10:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:10:31: #1 finished! INFO @ Tue, 14 Jul 2020 08:10:31: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:10:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:10:31: #2 number of paired peaks: 1832 INFO @ Tue, 14 Jul 2020 08:10:31: start model_add_line... INFO @ Tue, 14 Jul 2020 08:10:31: start X-correlation... INFO @ Tue, 14 Jul 2020 08:10:31: end of X-cor INFO @ Tue, 14 Jul 2020 08:10:31: #2 finished! INFO @ Tue, 14 Jul 2020 08:10:31: #2 predicted fragment length is 77 bps INFO @ Tue, 14 Jul 2020 08:10:31: #2 alternative fragment length(s) may be 77,169 bps INFO @ Tue, 14 Jul 2020 08:10:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.10_model.r WARNING @ Tue, 14 Jul 2020 08:10:31: #2 Since the d (77) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 08:10:31: #2 You may need to consider one of the other alternative d(s): 77,169 WARNING @ Tue, 14 Jul 2020 08:10:31: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 08:10:31: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:10:31: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:10:32: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:10:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:10:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:10:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.10_summits.bed INFO @ Tue, 14 Jul 2020 08:10:33: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (76 records, 4 fields): 1 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:10:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.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 @ Tue, 14 Jul 2020 08:10:56: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:10:56: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:11:01: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:11:01: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:11:01: #1 total tags in treatment: 641110 INFO @ Tue, 14 Jul 2020 08:11:01: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:11:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:11:01: #1 tags after filtering in treatment: 641110 INFO @ Tue, 14 Jul 2020 08:11:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:11:01: #1 finished! INFO @ Tue, 14 Jul 2020 08:11:01: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:11:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:11:01: #2 number of paired peaks: 1832 INFO @ Tue, 14 Jul 2020 08:11:01: start model_add_line... INFO @ Tue, 14 Jul 2020 08:11:01: start X-correlation... INFO @ Tue, 14 Jul 2020 08:11:01: end of X-cor INFO @ Tue, 14 Jul 2020 08:11:01: #2 finished! INFO @ Tue, 14 Jul 2020 08:11:01: #2 predicted fragment length is 77 bps INFO @ Tue, 14 Jul 2020 08:11:01: #2 alternative fragment length(s) may be 77,169 bps INFO @ Tue, 14 Jul 2020 08:11:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.20_model.r WARNING @ Tue, 14 Jul 2020 08:11:01: #2 Since the d (77) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 08:11:01: #2 You may need to consider one of the other alternative d(s): 77,169 WARNING @ Tue, 14 Jul 2020 08:11:01: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 08:11:01: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:11:01: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:11:02: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:11:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:11:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:11:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262544/SRX7262544.20_summits.bed INFO @ Tue, 14 Jul 2020 08:11:03: Done! pass1 - making usageList (5 chroms): 1 millis pass2 - checking and writing primary data (62 records, 4 fields): 16 millis CompletedMACS2peakCalling