Job ID = 12265202 SRX = SRX3467366 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 10359075 spots for SRR6372044/SRR6372044.sra Written 10359075 spots for SRR6372044/SRR6372044.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265349 ("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: 00:04:14 10359075 reads; of these: 10359075 (100.00%) were unpaired; of these: 6162115 (59.49%) aligned 0 times 3768364 (36.38%) aligned exactly 1 time 428596 (4.14%) aligned >1 times 40.51% overall alignment rate Time searching: 00:04:14 Overall time: 00:04:14 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_rmdupse_core] 1242313 / 4196960 = 0.2960 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 06:19:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.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 06:19:17: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:19:17: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:19:24: 1000000 INFO @ Sat, 03 Apr 2021 06:19:32: 2000000 INFO @ Sat, 03 Apr 2021 06:19:40: #1 tag size is determined as 97 bps INFO @ Sat, 03 Apr 2021 06:19:40: #1 tag size = 97 INFO @ Sat, 03 Apr 2021 06:19:40: #1 total tags in treatment: 2954647 INFO @ Sat, 03 Apr 2021 06:19:40: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:19:40: #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 06:19:40: #1 tags after filtering in treatment: 2954647 INFO @ Sat, 03 Apr 2021 06:19:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:19:40: #1 finished! INFO @ Sat, 03 Apr 2021 06:19:40: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:19:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:19:40: #2 number of paired peaks: 7405 INFO @ Sat, 03 Apr 2021 06:19:40: start model_add_line... INFO @ Sat, 03 Apr 2021 06:19:40: start X-correlation... INFO @ Sat, 03 Apr 2021 06:19:40: end of X-cor INFO @ Sat, 03 Apr 2021 06:19:40: #2 finished! INFO @ Sat, 03 Apr 2021 06:19:40: #2 predicted fragment length is 120 bps INFO @ Sat, 03 Apr 2021 06:19:40: #2 alternative fragment length(s) may be 120 bps INFO @ Sat, 03 Apr 2021 06:19:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.05_model.r WARNING @ Sat, 03 Apr 2021 06:19:40: #2 Since the d (120) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:19:40: #2 You may need to consider one of the other alternative d(s): 120 WARNING @ Sat, 03 Apr 2021 06:19:40: #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 06:19:40: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:19:40: #3 Pre-compute pvalue-qvalue table... 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 06:19:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.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 06:19:46: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:19:46: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:19:47: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:19:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:19:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:19:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.05_summits.bed INFO @ Sat, 03 Apr 2021 06:19:51: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (12757 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:19:55: 1000000 INFO @ Sat, 03 Apr 2021 06:20:03: 2000000 INFO @ Sat, 03 Apr 2021 06:20:11: #1 tag size is determined as 97 bps INFO @ Sat, 03 Apr 2021 06:20:11: #1 tag size = 97 INFO @ Sat, 03 Apr 2021 06:20:11: #1 total tags in treatment: 2954647 INFO @ Sat, 03 Apr 2021 06:20:11: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:20:11: #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 06:20:11: #1 tags after filtering in treatment: 2954647 INFO @ Sat, 03 Apr 2021 06:20:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:20:11: #1 finished! INFO @ Sat, 03 Apr 2021 06:20:11: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:20:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:20:11: #2 number of paired peaks: 7405 INFO @ Sat, 03 Apr 2021 06:20:11: start model_add_line... INFO @ Sat, 03 Apr 2021 06:20:11: start X-correlation... INFO @ Sat, 03 Apr 2021 06:20:11: end of X-cor INFO @ Sat, 03 Apr 2021 06:20:11: #2 finished! INFO @ Sat, 03 Apr 2021 06:20:11: #2 predicted fragment length is 120 bps INFO @ Sat, 03 Apr 2021 06:20:11: #2 alternative fragment length(s) may be 120 bps INFO @ Sat, 03 Apr 2021 06:20:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.10_model.r WARNING @ Sat, 03 Apr 2021 06:20:11: #2 Since the d (120) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:20:11: #2 You may need to consider one of the other alternative d(s): 120 WARNING @ Sat, 03 Apr 2021 06:20:11: #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 06:20:11: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:20:11: #3 Pre-compute pvalue-qvalue table... 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 06:20:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.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 06:20:17: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:20:17: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:20:18: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:20:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:20:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:20:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.10_summits.bed INFO @ Sat, 03 Apr 2021 06:20:22: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (8033 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:20:26: 1000000 INFO @ Sat, 03 Apr 2021 06:20:35: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:20:43: #1 tag size is determined as 97 bps INFO @ Sat, 03 Apr 2021 06:20:43: #1 tag size = 97 INFO @ Sat, 03 Apr 2021 06:20:43: #1 total tags in treatment: 2954647 INFO @ Sat, 03 Apr 2021 06:20:43: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:20:43: #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 06:20:43: #1 tags after filtering in treatment: 2954647 INFO @ Sat, 03 Apr 2021 06:20:43: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:20:43: #1 finished! INFO @ Sat, 03 Apr 2021 06:20:43: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:20:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:20:44: #2 number of paired peaks: 7405 INFO @ Sat, 03 Apr 2021 06:20:44: start model_add_line... INFO @ Sat, 03 Apr 2021 06:20:44: start X-correlation... INFO @ Sat, 03 Apr 2021 06:20:44: end of X-cor INFO @ Sat, 03 Apr 2021 06:20:44: #2 finished! INFO @ Sat, 03 Apr 2021 06:20:44: #2 predicted fragment length is 120 bps INFO @ Sat, 03 Apr 2021 06:20:44: #2 alternative fragment length(s) may be 120 bps INFO @ Sat, 03 Apr 2021 06:20:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.20_model.r WARNING @ Sat, 03 Apr 2021 06:20:44: #2 Since the d (120) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:20:44: #2 You may need to consider one of the other alternative d(s): 120 WARNING @ Sat, 03 Apr 2021 06:20:44: #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 06:20:44: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:20:44: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:20:51: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:20:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:20:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:20:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3467366/SRX3467366.20_summits.bed INFO @ Sat, 03 Apr 2021 06:20:55: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3641 records, 4 fields): 18 millis CompletedMACS2peakCalling