Job ID = 16440118 SRX = SRX10987326 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: 00:04:49 31584503 reads; of these: 31584503 (100.00%) were unpaired; of these: 30068068 (95.20%) aligned 0 times 1223929 (3.88%) aligned exactly 1 time 292506 (0.93%) aligned >1 times 4.80% overall alignment rate Time searching: 00:04:49 Overall time: 00:04:49 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_rmdupse_core] 45549 / 1516435 = 0.0300 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 17:20:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.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, 02 Aug 2022 17:20:35: #1 read tag files... INFO @ Tue, 02 Aug 2022 17:20:35: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 17:20:46: 1000000 INFO @ Tue, 02 Aug 2022 17:20:51: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 17:20:51: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 17:20:51: #1 total tags in treatment: 1470886 INFO @ Tue, 02 Aug 2022 17:20:51: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 17:20:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 17:20:51: #1 tags after filtering in treatment: 1470451 INFO @ Tue, 02 Aug 2022 17:20:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 17:20:51: #1 finished! INFO @ Tue, 02 Aug 2022 17:20:51: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 17:20:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 17:20:51: #2 number of paired peaks: 1944 INFO @ Tue, 02 Aug 2022 17:20:51: start model_add_line... INFO @ Tue, 02 Aug 2022 17:20:51: start X-correlation... INFO @ Tue, 02 Aug 2022 17:20:52: end of X-cor INFO @ Tue, 02 Aug 2022 17:20:52: #2 finished! INFO @ Tue, 02 Aug 2022 17:20:52: #2 predicted fragment length is 116 bps INFO @ Tue, 02 Aug 2022 17:20:52: #2 alternative fragment length(s) may be 116 bps INFO @ Tue, 02 Aug 2022 17:20:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.05_model.r WARNING @ Tue, 02 Aug 2022 17:20:52: #2 Since the d (116) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 17:20:52: #2 You may need to consider one of the other alternative d(s): 116 WARNING @ Tue, 02 Aug 2022 17:20:52: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 02 Aug 2022 17:20:52: #3 Call peaks... INFO @ Tue, 02 Aug 2022 17:20:52: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 17:20:57: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 17:20:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.05_peaks.xls INFO @ Tue, 02 Aug 2022 17:20:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 17:21:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.05_summits.bed INFO @ Tue, 02 Aug 2022 17:21:00: Done! pass1 - making usageList (92 chroms): 2 millis pass2 - checking and writing primary data (272 records, 4 fields): 32 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 17:21:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.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, 02 Aug 2022 17:21:03: #1 read tag files... INFO @ Tue, 02 Aug 2022 17:21:03: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 17:21:14: 1000000 INFO @ Tue, 02 Aug 2022 17:21:20: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 17:21:20: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 17:21:20: #1 total tags in treatment: 1470886 INFO @ Tue, 02 Aug 2022 17:21:20: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 17:21:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 17:21:20: #1 tags after filtering in treatment: 1470451 INFO @ Tue, 02 Aug 2022 17:21:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 17:21:20: #1 finished! INFO @ Tue, 02 Aug 2022 17:21:20: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 17:21:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 17:21:21: #2 number of paired peaks: 1944 INFO @ Tue, 02 Aug 2022 17:21:21: start model_add_line... INFO @ Tue, 02 Aug 2022 17:21:21: start X-correlation... INFO @ Tue, 02 Aug 2022 17:21:21: end of X-cor INFO @ Tue, 02 Aug 2022 17:21:21: #2 finished! INFO @ Tue, 02 Aug 2022 17:21:21: #2 predicted fragment length is 116 bps INFO @ Tue, 02 Aug 2022 17:21:21: #2 alternative fragment length(s) may be 116 bps INFO @ Tue, 02 Aug 2022 17:21:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.10_model.r WARNING @ Tue, 02 Aug 2022 17:21:21: #2 Since the d (116) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 17:21:21: #2 You may need to consider one of the other alternative d(s): 116 WARNING @ Tue, 02 Aug 2022 17:21:21: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 02 Aug 2022 17:21:21: #3 Call peaks... INFO @ Tue, 02 Aug 2022 17:21:21: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 17:21:26: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 17:21:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.10_peaks.xls INFO @ Tue, 02 Aug 2022 17:21:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 17:21:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.10_summits.bed INFO @ Tue, 02 Aug 2022 17:21:29: Done! pass1 - making usageList (45 chroms): 2 millis pass2 - checking and writing primary data (99 records, 4 fields): 19 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 17:21:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.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, 02 Aug 2022 17:21:33: #1 read tag files... INFO @ Tue, 02 Aug 2022 17:21:33: #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, 02 Aug 2022 17:21:48: 1000000 INFO @ Tue, 02 Aug 2022 17:21:54: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 17:21:54: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 17:21:54: #1 total tags in treatment: 1470886 INFO @ Tue, 02 Aug 2022 17:21:54: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 17:21:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 17:21:55: #1 tags after filtering in treatment: 1470451 INFO @ Tue, 02 Aug 2022 17:21:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 17:21:55: #1 finished! INFO @ Tue, 02 Aug 2022 17:21:55: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 17:21:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 17:21:55: #2 number of paired peaks: 1944 INFO @ Tue, 02 Aug 2022 17:21:55: start model_add_line... INFO @ Tue, 02 Aug 2022 17:21:55: start X-correlation... INFO @ Tue, 02 Aug 2022 17:21:55: end of X-cor INFO @ Tue, 02 Aug 2022 17:21:55: #2 finished! INFO @ Tue, 02 Aug 2022 17:21:55: #2 predicted fragment length is 116 bps INFO @ Tue, 02 Aug 2022 17:21:55: #2 alternative fragment length(s) may be 116 bps INFO @ Tue, 02 Aug 2022 17:21:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.20_model.r WARNING @ Tue, 02 Aug 2022 17:21:55: #2 Since the d (116) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 17:21:55: #2 You may need to consider one of the other alternative d(s): 116 WARNING @ Tue, 02 Aug 2022 17:21:55: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 02 Aug 2022 17:21:55: #3 Call peaks... INFO @ Tue, 02 Aug 2022 17:21:55: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 17:22:00: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 17:22:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.20_peaks.xls INFO @ Tue, 02 Aug 2022 17:22:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 17:22:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10987326/SRX10987326.20_summits.bed INFO @ Tue, 02 Aug 2022 17:22:03: Done! pass1 - making usageList (22 chroms): 1 millis pass2 - checking and writing primary data (34 records, 4 fields): 20 millis CompletedMACS2peakCalling