Job ID = 6365950 SRX = SRX043882 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:05:53 prefetch.2.10.7: 1) Downloading 'SRR107360'... 2020-06-15T23:05:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:06:09 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:06:09 prefetch.2.10.7: 'SRR107360' is valid 2020-06-15T23:06:09 prefetch.2.10.7: 1) 'SRR107360' was downloaded successfully Read 671681 spots for SRR107360/SRR107360.sra Written 671681 spots for SRR107360/SRR107360.sra 2020-06-15T23:06:22 prefetch.2.10.7: 1) Downloading 'SRR107361'... 2020-06-15T23:06:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:06:42 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:06:42 prefetch.2.10.7: 'SRR107361' is valid 2020-06-15T23:06:42 prefetch.2.10.7: 1) 'SRR107361' was downloaded successfully Read 2958948 spots for SRR107361/SRR107361.sra Written 2958948 spots for SRR107361/SRR107361.sra 2020-06-15T23:07:02 prefetch.2.10.7: 1) Downloading 'SRR107362'... 2020-06-15T23:07:02 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:07:21 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:07:21 prefetch.2.10.7: 'SRR107362' is valid 2020-06-15T23:07:21 prefetch.2.10.7: 1) 'SRR107362' was downloaded successfully Read 637263 spots for SRR107362/SRR107362.sra Written 637263 spots for SRR107362/SRR107362.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: 00:00:31 4267892 reads; of these: 4267892 (100.00%) were unpaired; of these: 2323443 (54.44%) aligned 0 times 1738865 (40.74%) aligned exactly 1 time 205584 (4.82%) aligned >1 times 45.56% overall alignment rate Time searching: 00:00:31 Overall time: 00:00:31 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_rmdupse_core] 252006 / 1944449 = 0.1296 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 @ Tue, 16 Jun 2020 08:08:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 16 Jun 2020 08:08:59: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:08:59: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:09:05: 1000000 INFO @ Tue, 16 Jun 2020 08:09:10: #1 tag size is determined as 34 bps INFO @ Tue, 16 Jun 2020 08:09:10: #1 tag size = 34 INFO @ Tue, 16 Jun 2020 08:09:10: #1 total tags in treatment: 1692443 INFO @ Tue, 16 Jun 2020 08:09:10: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:09:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:09:10: #1 tags after filtering in treatment: 1692443 INFO @ Tue, 16 Jun 2020 08:09:10: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:09:10: #1 finished! INFO @ Tue, 16 Jun 2020 08:09:10: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:09:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:09:10: #2 number of paired peaks: 2059 INFO @ Tue, 16 Jun 2020 08:09:10: start model_add_line... INFO @ Tue, 16 Jun 2020 08:09:10: start X-correlation... INFO @ Tue, 16 Jun 2020 08:09:10: end of X-cor INFO @ Tue, 16 Jun 2020 08:09:10: #2 finished! INFO @ Tue, 16 Jun 2020 08:09:10: #2 predicted fragment length is 161 bps INFO @ Tue, 16 Jun 2020 08:09:10: #2 alternative fragment length(s) may be 161 bps INFO @ Tue, 16 Jun 2020 08:09:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.05_model.r INFO @ Tue, 16 Jun 2020 08:09:10: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:09:10: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 08:09:14: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:09:17: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.05_peaks.xls INFO @ Tue, 16 Jun 2020 08:09:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:09:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.05_summits.bed INFO @ Tue, 16 Jun 2020 08:09:17: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1388 records, 4 fields): 2 millis CompletedMACS2peakCalling 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 @ Tue, 16 Jun 2020 08:09:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 16 Jun 2020 08:09:29: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:09:29: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:09:35: 1000000 INFO @ Tue, 16 Jun 2020 08:09:40: #1 tag size is determined as 34 bps INFO @ Tue, 16 Jun 2020 08:09:40: #1 tag size = 34 INFO @ Tue, 16 Jun 2020 08:09:40: #1 total tags in treatment: 1692443 INFO @ Tue, 16 Jun 2020 08:09:40: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:09:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:09:40: #1 tags after filtering in treatment: 1692443 INFO @ Tue, 16 Jun 2020 08:09:40: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:09:40: #1 finished! INFO @ Tue, 16 Jun 2020 08:09:40: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:09:40: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:09:40: #2 number of paired peaks: 2059 INFO @ Tue, 16 Jun 2020 08:09:40: start model_add_line... INFO @ Tue, 16 Jun 2020 08:09:40: start X-correlation... INFO @ Tue, 16 Jun 2020 08:09:40: end of X-cor INFO @ Tue, 16 Jun 2020 08:09:40: #2 finished! INFO @ Tue, 16 Jun 2020 08:09:40: #2 predicted fragment length is 161 bps INFO @ Tue, 16 Jun 2020 08:09:40: #2 alternative fragment length(s) may be 161 bps INFO @ Tue, 16 Jun 2020 08:09:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.10_model.r INFO @ Tue, 16 Jun 2020 08:09:40: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:09:40: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 08:09:44: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:09:47: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.10_peaks.xls INFO @ Tue, 16 Jun 2020 08:09:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:09:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.10_summits.bed INFO @ Tue, 16 Jun 2020 08:09:47: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (467 records, 4 fields): 1 millis CompletedMACS2peakCalling 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 @ Tue, 16 Jun 2020 08:09:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 16 Jun 2020 08:09:59: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:09:59: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:10:06: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:10:10: #1 tag size is determined as 34 bps INFO @ Tue, 16 Jun 2020 08:10:10: #1 tag size = 34 INFO @ Tue, 16 Jun 2020 08:10:10: #1 total tags in treatment: 1692443 INFO @ Tue, 16 Jun 2020 08:10:10: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:10:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:10:10: #1 tags after filtering in treatment: 1692443 INFO @ Tue, 16 Jun 2020 08:10:10: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:10:10: #1 finished! INFO @ Tue, 16 Jun 2020 08:10:10: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:10:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:10:10: #2 number of paired peaks: 2059 INFO @ Tue, 16 Jun 2020 08:10:10: start model_add_line... INFO @ Tue, 16 Jun 2020 08:10:10: start X-correlation... INFO @ Tue, 16 Jun 2020 08:10:10: end of X-cor INFO @ Tue, 16 Jun 2020 08:10:10: #2 finished! INFO @ Tue, 16 Jun 2020 08:10:10: #2 predicted fragment length is 161 bps INFO @ Tue, 16 Jun 2020 08:10:10: #2 alternative fragment length(s) may be 161 bps INFO @ Tue, 16 Jun 2020 08:10:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.20_model.r INFO @ Tue, 16 Jun 2020 08:10:10: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:10:10: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 08:10:15: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:10:17: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.20_peaks.xls INFO @ Tue, 16 Jun 2020 08:10:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:10:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX043882/SRX043882.20_summits.bed INFO @ Tue, 16 Jun 2020 08:10:17: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (148 records, 4 fields): 1 millis CompletedMACS2peakCalling