Job ID = 6457133 SRX = SRX447392 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:20:54 prefetch.2.10.7: 1) Downloading 'SRR1141008'... 2020-06-21T11:20:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:24:34 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:24:34 prefetch.2.10.7: 1) 'SRR1141008' was downloaded successfully Read 43124394 spots for SRR1141008/SRR1141008.sra Written 43124394 spots for SRR1141008/SRR1141008.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: 00:04:15 43124394 reads; of these: 43124394 (100.00%) were unpaired; of these: 30719958 (71.24%) aligned 0 times 10053546 (23.31%) aligned exactly 1 time 2350890 (5.45%) aligned >1 times 28.76% overall alignment rate Time searching: 00:04:15 Overall time: 00:04:15 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] 3122158 / 12404436 = 0.2517 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 20:33:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.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 20:33:35: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:33:35: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:33:40: 1000000 INFO @ Sun, 21 Jun 2020 20:33:45: 2000000 INFO @ Sun, 21 Jun 2020 20:33:51: 3000000 INFO @ Sun, 21 Jun 2020 20:33:56: 4000000 INFO @ Sun, 21 Jun 2020 20:34:02: 5000000 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 20:34:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.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 20:34:05: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:34:05: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:34:07: 6000000 INFO @ Sun, 21 Jun 2020 20:34:11: 1000000 INFO @ Sun, 21 Jun 2020 20:34:13: 7000000 INFO @ Sun, 21 Jun 2020 20:34:17: 2000000 INFO @ Sun, 21 Jun 2020 20:34:20: 8000000 INFO @ Sun, 21 Jun 2020 20:34:23: 3000000 INFO @ Sun, 21 Jun 2020 20:34:26: 9000000 INFO @ Sun, 21 Jun 2020 20:34:27: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 20:34:27: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 20:34:27: #1 total tags in treatment: 9282278 INFO @ Sun, 21 Jun 2020 20:34:27: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:34:27: #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 20:34:28: #1 tags after filtering in treatment: 9282166 INFO @ Sun, 21 Jun 2020 20:34:28: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:34:28: #1 finished! INFO @ Sun, 21 Jun 2020 20:34:28: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:34:28: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:34:28: 4000000 INFO @ Sun, 21 Jun 2020 20:34:28: #2 number of paired peaks: 1356 INFO @ Sun, 21 Jun 2020 20:34:28: start model_add_line... INFO @ Sun, 21 Jun 2020 20:34:29: start X-correlation... INFO @ Sun, 21 Jun 2020 20:34:29: end of X-cor INFO @ Sun, 21 Jun 2020 20:34:29: #2 finished! INFO @ Sun, 21 Jun 2020 20:34:29: #2 predicted fragment length is 95 bps INFO @ Sun, 21 Jun 2020 20:34:29: #2 alternative fragment length(s) may be 95 bps INFO @ Sun, 21 Jun 2020 20:34:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.05_model.r INFO @ Sun, 21 Jun 2020 20:34:29: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:34:29: #3 Pre-compute pvalue-qvalue table... 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 20:34:34: 5000000 INFO @ Sun, 21 Jun 2020 20:34:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.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 20:34:35: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:34:35: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:34:39: 6000000 INFO @ Sun, 21 Jun 2020 20:34:41: 1000000 INFO @ Sun, 21 Jun 2020 20:34:45: 7000000 INFO @ Sun, 21 Jun 2020 20:34:47: 2000000 INFO @ Sun, 21 Jun 2020 20:34:49: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:34:52: 8000000 INFO @ Sun, 21 Jun 2020 20:34:53: 3000000 INFO @ Sun, 21 Jun 2020 20:34:58: 9000000 INFO @ Sun, 21 Jun 2020 20:34:59: 4000000 INFO @ Sun, 21 Jun 2020 20:35:00: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 20:35:00: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 20:35:00: #1 total tags in treatment: 9282278 INFO @ Sun, 21 Jun 2020 20:35:00: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:35:00: #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 20:35:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:35:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:35:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.05_summits.bed INFO @ Sun, 21 Jun 2020 20:35:00: Done! INFO @ Sun, 21 Jun 2020 20:35:00: #1 tags after filtering in treatment: 9282166 INFO @ Sun, 21 Jun 2020 20:35:00: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:35:00: #1 finished! INFO @ Sun, 21 Jun 2020 20:35:00: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:35:00: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (325 chroms): 2 millis pass2 - checking and writing primary data (6125 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:35:01: #2 number of paired peaks: 1356 INFO @ Sun, 21 Jun 2020 20:35:01: start model_add_line... INFO @ Sun, 21 Jun 2020 20:35:01: start X-correlation... INFO @ Sun, 21 Jun 2020 20:35:01: end of X-cor INFO @ Sun, 21 Jun 2020 20:35:01: #2 finished! INFO @ Sun, 21 Jun 2020 20:35:01: #2 predicted fragment length is 95 bps INFO @ Sun, 21 Jun 2020 20:35:01: #2 alternative fragment length(s) may be 95 bps INFO @ Sun, 21 Jun 2020 20:35:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.10_model.r INFO @ Sun, 21 Jun 2020 20:35:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:35:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:35:05: 5000000 INFO @ Sun, 21 Jun 2020 20:35:11: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:35:17: 7000000 INFO @ Sun, 21 Jun 2020 20:35:22: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:35:23: 8000000 INFO @ Sun, 21 Jun 2020 20:35:28: 9000000 INFO @ Sun, 21 Jun 2020 20:35:30: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 20:35:30: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 20:35:30: #1 total tags in treatment: 9282278 INFO @ Sun, 21 Jun 2020 20:35:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:35:30: #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 20:35:30: #1 tags after filtering in treatment: 9282166 INFO @ Sun, 21 Jun 2020 20:35:30: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:35:30: #1 finished! INFO @ Sun, 21 Jun 2020 20:35:30: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:35:30: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:35:31: #2 number of paired peaks: 1356 INFO @ Sun, 21 Jun 2020 20:35:31: start model_add_line... INFO @ Sun, 21 Jun 2020 20:35:31: start X-correlation... INFO @ Sun, 21 Jun 2020 20:35:31: end of X-cor INFO @ Sun, 21 Jun 2020 20:35:31: #2 finished! INFO @ Sun, 21 Jun 2020 20:35:31: #2 predicted fragment length is 95 bps INFO @ Sun, 21 Jun 2020 20:35:31: #2 alternative fragment length(s) may be 95 bps INFO @ Sun, 21 Jun 2020 20:35:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.20_model.r INFO @ Sun, 21 Jun 2020 20:35:31: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:35:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:35:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:35:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:35:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.10_summits.bed INFO @ Sun, 21 Jun 2020 20:35:32: Done! pass1 - making usageList (232 chroms): 2 millis pass2 - checking and writing primary data (3695 records, 4 fields): 10 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:35:51: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:36:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:36:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:36:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX447392/SRX447392.20_summits.bed INFO @ Sun, 21 Jun 2020 20:36:01: Done! pass1 - making usageList (170 chroms): 1 millis pass2 - checking and writing primary data (2166 records, 4 fields): 7 millis CompletedMACS2peakCalling