Job ID = 12265358 SRX = SRX3467365 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: 00:05:13 12989659 reads; of these: 12989659 (100.00%) were unpaired; of these: 7218618 (55.57%) aligned 0 times 5339529 (41.11%) aligned exactly 1 time 431512 (3.32%) aligned >1 times 44.43% overall alignment rate Time searching: 00:05:13 Overall time: 00:05:13 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] 1947076 / 5771041 = 0.3374 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 06:47:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.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 06:47:53: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:47:53: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:48:03: 1000000 INFO @ Sat, 03 Apr 2021 06:48:14: 2000000 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 06:48:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.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 06:48:23: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:48:23: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:48:24: 3000000 INFO @ Sat, 03 Apr 2021 06:48:31: 1000000 INFO @ Sat, 03 Apr 2021 06:48:33: #1 tag size is determined as 97 bps INFO @ Sat, 03 Apr 2021 06:48:33: #1 tag size = 97 INFO @ Sat, 03 Apr 2021 06:48:33: #1 total tags in treatment: 3823965 INFO @ Sat, 03 Apr 2021 06:48:33: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:48:33: #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 06:48:33: #1 tags after filtering in treatment: 3823499 INFO @ Sat, 03 Apr 2021 06:48:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:48:33: #1 finished! INFO @ Sat, 03 Apr 2021 06:48:33: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:48:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:48:34: #2 number of paired peaks: 7331 INFO @ Sat, 03 Apr 2021 06:48:34: start model_add_line... INFO @ Sat, 03 Apr 2021 06:48:34: start X-correlation... INFO @ Sat, 03 Apr 2021 06:48:34: end of X-cor INFO @ Sat, 03 Apr 2021 06:48:34: #2 finished! INFO @ Sat, 03 Apr 2021 06:48:34: #2 predicted fragment length is 121 bps INFO @ Sat, 03 Apr 2021 06:48:34: #2 alternative fragment length(s) may be 121 bps INFO @ Sat, 03 Apr 2021 06:48:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.05_model.r WARNING @ Sat, 03 Apr 2021 06:48:34: #2 Since the d (121) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:48:34: #2 You may need to consider one of the other alternative d(s): 121 WARNING @ Sat, 03 Apr 2021 06:48:34: #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 06:48:34: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:48:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:48:40: 2000000 INFO @ Sat, 03 Apr 2021 06:48:43: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:48:48: 3000000 INFO @ Sat, 03 Apr 2021 06:48:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:48:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:48:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.05_summits.bed INFO @ Sat, 03 Apr 2021 06:48:49: Done! pass1 - making usageList (103 chroms): 3 millis pass2 - checking and writing primary data (14725 records, 4 fields): 31 millis CompletedMACS2peakCalling 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 06:48:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.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 06:48:53: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:48:53: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:48:56: #1 tag size is determined as 97 bps INFO @ Sat, 03 Apr 2021 06:48:56: #1 tag size = 97 INFO @ Sat, 03 Apr 2021 06:48:56: #1 total tags in treatment: 3823965 INFO @ Sat, 03 Apr 2021 06:48:56: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:48:56: #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 06:48:57: #1 tags after filtering in treatment: 3823499 INFO @ Sat, 03 Apr 2021 06:48:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:48:57: #1 finished! INFO @ Sat, 03 Apr 2021 06:48:57: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:48:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:48:57: #2 number of paired peaks: 7331 INFO @ Sat, 03 Apr 2021 06:48:57: start model_add_line... INFO @ Sat, 03 Apr 2021 06:48:57: start X-correlation... INFO @ Sat, 03 Apr 2021 06:48:57: end of X-cor INFO @ Sat, 03 Apr 2021 06:48:57: #2 finished! INFO @ Sat, 03 Apr 2021 06:48:57: #2 predicted fragment length is 121 bps INFO @ Sat, 03 Apr 2021 06:48:57: #2 alternative fragment length(s) may be 121 bps INFO @ Sat, 03 Apr 2021 06:48:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.10_model.r WARNING @ Sat, 03 Apr 2021 06:48:57: #2 Since the d (121) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:48:57: #2 You may need to consider one of the other alternative d(s): 121 WARNING @ Sat, 03 Apr 2021 06:48:57: #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 06:48:57: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:48:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:49:01: 1000000 INFO @ Sat, 03 Apr 2021 06:49:07: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:49:09: 2000000 INFO @ Sat, 03 Apr 2021 06:49:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:49:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:49:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.10_summits.bed INFO @ Sat, 03 Apr 2021 06:49:12: Done! pass1 - making usageList (70 chroms): 3 millis pass2 - checking and writing primary data (9556 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:49:16: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:49:24: #1 tag size is determined as 97 bps INFO @ Sat, 03 Apr 2021 06:49:24: #1 tag size = 97 INFO @ Sat, 03 Apr 2021 06:49:24: #1 total tags in treatment: 3823965 INFO @ Sat, 03 Apr 2021 06:49:24: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:49:24: #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 06:49:24: #1 tags after filtering in treatment: 3823499 INFO @ Sat, 03 Apr 2021 06:49:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:49:24: #1 finished! INFO @ Sat, 03 Apr 2021 06:49:24: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:49:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:49:25: #2 number of paired peaks: 7331 INFO @ Sat, 03 Apr 2021 06:49:25: start model_add_line... INFO @ Sat, 03 Apr 2021 06:49:25: start X-correlation... INFO @ Sat, 03 Apr 2021 06:49:25: end of X-cor INFO @ Sat, 03 Apr 2021 06:49:25: #2 finished! INFO @ Sat, 03 Apr 2021 06:49:25: #2 predicted fragment length is 121 bps INFO @ Sat, 03 Apr 2021 06:49:25: #2 alternative fragment length(s) may be 121 bps INFO @ Sat, 03 Apr 2021 06:49:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.20_model.r WARNING @ Sat, 03 Apr 2021 06:49:25: #2 Since the d (121) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:49:25: #2 You may need to consider one of the other alternative d(s): 121 WARNING @ Sat, 03 Apr 2021 06:49:25: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:49:25: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:49:25: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:49:34: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:49:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:49:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:49:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3467365/SRX3467365.20_summits.bed INFO @ Sat, 03 Apr 2021 06:49:39: Done! pass1 - making usageList (44 chroms): 1 millis pass2 - checking and writing primary data (4594 records, 4 fields): 10 millis CompletedMACS2peakCalling