Job ID = 6451896 SRX = ERX101807 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:00:53 prefetch.2.10.7: 1) Downloading 'ERR125648'... 2020-06-21T08:00:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:03:22 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:03:23 prefetch.2.10.7: 'ERR125648' is valid 2020-06-21T08:03:23 prefetch.2.10.7: 1) 'ERR125648' was downloaded successfully Read 12567533 spots for ERR125648/ERR125648.sra Written 12567533 spots for ERR125648/ERR125648.sra 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: 00:02:17 12567533 reads; of these: 12567533 (100.00%) were unpaired; of these: 951900 (7.57%) aligned 0 times 10873269 (86.52%) aligned exactly 1 time 742364 (5.91%) aligned >1 times 92.43% overall alignment rate Time searching: 00:02:17 Overall time: 00:02:17 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] 3648817 / 11615633 = 0.3141 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 @ Sun, 21 Jun 2020 17:09:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.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 @ Sun, 21 Jun 2020 17:09:02: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:09:02: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:09:08: 1000000 INFO @ Sun, 21 Jun 2020 17:09:15: 2000000 INFO @ Sun, 21 Jun 2020 17:09:21: 3000000 INFO @ Sun, 21 Jun 2020 17:09:28: 4000000 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 @ Sun, 21 Jun 2020 17:09:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.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 @ Sun, 21 Jun 2020 17:09:32: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:09:32: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:09:34: 5000000 INFO @ Sun, 21 Jun 2020 17:09:39: 1000000 INFO @ Sun, 21 Jun 2020 17:09:42: 6000000 INFO @ Sun, 21 Jun 2020 17:09:46: 2000000 INFO @ Sun, 21 Jun 2020 17:09:49: 7000000 INFO @ Sun, 21 Jun 2020 17:09:52: 3000000 INFO @ Sun, 21 Jun 2020 17:09:55: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:09:55: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:09:55: #1 total tags in treatment: 7966816 INFO @ Sun, 21 Jun 2020 17:09:55: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:09:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:09:56: #1 tags after filtering in treatment: 7966234 INFO @ Sun, 21 Jun 2020 17:09:56: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:09:56: #1 finished! INFO @ Sun, 21 Jun 2020 17:09:56: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:09:56: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:09:56: #2 number of paired peaks: 4283 INFO @ Sun, 21 Jun 2020 17:09:56: start model_add_line... INFO @ Sun, 21 Jun 2020 17:09:56: start X-correlation... INFO @ Sun, 21 Jun 2020 17:09:57: end of X-cor INFO @ Sun, 21 Jun 2020 17:09:57: #2 finished! INFO @ Sun, 21 Jun 2020 17:09:57: #2 predicted fragment length is 223 bps INFO @ Sun, 21 Jun 2020 17:09:57: #2 alternative fragment length(s) may be 223 bps INFO @ Sun, 21 Jun 2020 17:09:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.05_model.r INFO @ Sun, 21 Jun 2020 17:09:57: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:09:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:09:59: 4000000 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 @ Sun, 21 Jun 2020 17:10:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.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 @ Sun, 21 Jun 2020 17:10:02: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:10:02: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:10:05: 5000000 INFO @ Sun, 21 Jun 2020 17:10:09: 1000000 INFO @ Sun, 21 Jun 2020 17:10:12: 6000000 INFO @ Sun, 21 Jun 2020 17:10:16: 2000000 INFO @ Sun, 21 Jun 2020 17:10:17: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:10:19: 7000000 INFO @ Sun, 21 Jun 2020 17:10:23: 3000000 INFO @ Sun, 21 Jun 2020 17:10:26: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:10:26: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:10:26: #1 total tags in treatment: 7966816 INFO @ Sun, 21 Jun 2020 17:10:26: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:10:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:10:26: #1 tags after filtering in treatment: 7966234 INFO @ Sun, 21 Jun 2020 17:10:26: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:10:26: #1 finished! INFO @ Sun, 21 Jun 2020 17:10:26: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:10:26: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:10:27: #2 number of paired peaks: 4283 INFO @ Sun, 21 Jun 2020 17:10:27: start model_add_line... INFO @ Sun, 21 Jun 2020 17:10:27: start X-correlation... INFO @ Sun, 21 Jun 2020 17:10:27: end of X-cor INFO @ Sun, 21 Jun 2020 17:10:27: #2 finished! INFO @ Sun, 21 Jun 2020 17:10:27: #2 predicted fragment length is 223 bps INFO @ Sun, 21 Jun 2020 17:10:27: #2 alternative fragment length(s) may be 223 bps INFO @ Sun, 21 Jun 2020 17:10:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.10_model.r INFO @ Sun, 21 Jun 2020 17:10:27: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:10:27: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:10:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:10:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:10:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.05_summits.bed INFO @ Sun, 21 Jun 2020 17:10:28: Done! pass1 - making usageList (22 chroms): 1 millis pass2 - checking and writing primary data (7392 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:10:30: 4000000 INFO @ Sun, 21 Jun 2020 17:10:36: 5000000 INFO @ Sun, 21 Jun 2020 17:10:43: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:10:49: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:10:49: 7000000 INFO @ Sun, 21 Jun 2020 17:10:55: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:10:55: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:10:55: #1 total tags in treatment: 7966816 INFO @ Sun, 21 Jun 2020 17:10:55: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:10:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:10:56: #1 tags after filtering in treatment: 7966234 INFO @ Sun, 21 Jun 2020 17:10:56: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:10:56: #1 finished! INFO @ Sun, 21 Jun 2020 17:10:56: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:10:56: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:10:57: #2 number of paired peaks: 4283 INFO @ Sun, 21 Jun 2020 17:10:57: start model_add_line... INFO @ Sun, 21 Jun 2020 17:10:57: start X-correlation... INFO @ Sun, 21 Jun 2020 17:10:57: end of X-cor INFO @ Sun, 21 Jun 2020 17:10:57: #2 finished! INFO @ Sun, 21 Jun 2020 17:10:57: #2 predicted fragment length is 223 bps INFO @ Sun, 21 Jun 2020 17:10:57: #2 alternative fragment length(s) may be 223 bps INFO @ Sun, 21 Jun 2020 17:10:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.20_model.r INFO @ Sun, 21 Jun 2020 17:10:57: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:10:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:10:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:10:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:10:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.10_summits.bed INFO @ Sun, 21 Jun 2020 17:10:59: Done! pass1 - making usageList (19 chroms): 1 millis pass2 - checking and writing primary data (4191 records, 4 fields): 5 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:11:19: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:11:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:11:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:11:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX101807/ERX101807.20_summits.bed INFO @ Sun, 21 Jun 2020 17:11:30: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (1746 records, 4 fields): 4 millis CompletedMACS2peakCalling