Job ID = 10166035 SRX = SRX8832111 Genome = ce11 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: 00:02:27 11077363 reads; of these: 11077363 (100.00%) were unpaired; of these: 2206272 (19.92%) aligned 0 times 7244453 (65.40%) aligned exactly 1 time 1626638 (14.68%) aligned >1 times 80.08% overall alignment rate Time searching: 00:02:27 Overall time: 00:02:27 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] 3072128 / 8871091 = 0.3463 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 @ Thu, 08 Oct 2020 20:30:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.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 @ Thu, 08 Oct 2020 20:30:57: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:30:57: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:31:02: 1000000 INFO @ Thu, 08 Oct 2020 20:31:07: 2000000 INFO @ Thu, 08 Oct 2020 20:31:13: 3000000 INFO @ Thu, 08 Oct 2020 20:31:18: 4000000 INFO @ Thu, 08 Oct 2020 20:31:23: 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 @ Thu, 08 Oct 2020 20:31:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.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 @ Thu, 08 Oct 2020 20:31:27: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:31:27: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:31:28: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:31:28: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:31:28: #1 total tags in treatment: 5798963 INFO @ Thu, 08 Oct 2020 20:31:28: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:31:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:31:28: #1 tags after filtering in treatment: 5798963 INFO @ Thu, 08 Oct 2020 20:31:28: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:31:28: #1 finished! INFO @ Thu, 08 Oct 2020 20:31:28: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:31:28: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:31:28: #2 number of paired peaks: 2640 INFO @ Thu, 08 Oct 2020 20:31:28: start model_add_line... INFO @ Thu, 08 Oct 2020 20:31:28: start X-correlation... INFO @ Thu, 08 Oct 2020 20:31:28: end of X-cor INFO @ Thu, 08 Oct 2020 20:31:28: #2 finished! INFO @ Thu, 08 Oct 2020 20:31:28: #2 predicted fragment length is 155 bps INFO @ Thu, 08 Oct 2020 20:31:28: #2 alternative fragment length(s) may be 155 bps INFO @ Thu, 08 Oct 2020 20:31:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.05_model.r INFO @ Thu, 08 Oct 2020 20:31:28: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:31:28: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:31:32: 1000000 INFO @ Thu, 08 Oct 2020 20:31:38: 2000000 INFO @ Thu, 08 Oct 2020 20:31:43: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:31:44: 3000000 INFO @ Thu, 08 Oct 2020 20:31:50: 4000000 INFO @ Thu, 08 Oct 2020 20:31:50: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:31:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:31:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.05_summits.bed INFO @ Thu, 08 Oct 2020 20:31:50: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6794 records, 4 fields): 9 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 @ Thu, 08 Oct 2020 20:31:55: 5000000 INFO @ Thu, 08 Oct 2020 20:31:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.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 @ Thu, 08 Oct 2020 20:31:57: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:31:57: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:32:00: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:32:00: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:32:00: #1 total tags in treatment: 5798963 INFO @ Thu, 08 Oct 2020 20:32:00: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:32:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:32:00: #1 tags after filtering in treatment: 5798963 INFO @ Thu, 08 Oct 2020 20:32:00: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:32:00: #1 finished! INFO @ Thu, 08 Oct 2020 20:32:00: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:32:00: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:32:01: #2 number of paired peaks: 2640 INFO @ Thu, 08 Oct 2020 20:32:01: start model_add_line... INFO @ Thu, 08 Oct 2020 20:32:01: start X-correlation... INFO @ Thu, 08 Oct 2020 20:32:01: end of X-cor INFO @ Thu, 08 Oct 2020 20:32:01: #2 finished! INFO @ Thu, 08 Oct 2020 20:32:01: #2 predicted fragment length is 155 bps INFO @ Thu, 08 Oct 2020 20:32:01: #2 alternative fragment length(s) may be 155 bps INFO @ Thu, 08 Oct 2020 20:32:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.10_model.r INFO @ Thu, 08 Oct 2020 20:32:01: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:32:01: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:32:02: 1000000 INFO @ Thu, 08 Oct 2020 20:32:06: 2000000 INFO @ Thu, 08 Oct 2020 20:32:11: 3000000 INFO @ Thu, 08 Oct 2020 20:32:15: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:32:16: 4000000 INFO @ Thu, 08 Oct 2020 20:32:21: 5000000 INFO @ Thu, 08 Oct 2020 20:32:23: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:32:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:32:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.10_summits.bed INFO @ Thu, 08 Oct 2020 20:32:24: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5116 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:32:25: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:32:25: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:32:25: #1 total tags in treatment: 5798963 INFO @ Thu, 08 Oct 2020 20:32:25: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:32:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:32:25: #1 tags after filtering in treatment: 5798963 INFO @ Thu, 08 Oct 2020 20:32:25: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:32:25: #1 finished! INFO @ Thu, 08 Oct 2020 20:32:25: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:32:25: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:32:26: #2 number of paired peaks: 2640 INFO @ Thu, 08 Oct 2020 20:32:26: start model_add_line... INFO @ Thu, 08 Oct 2020 20:32:26: start X-correlation... INFO @ Thu, 08 Oct 2020 20:32:26: end of X-cor INFO @ Thu, 08 Oct 2020 20:32:26: #2 finished! INFO @ Thu, 08 Oct 2020 20:32:26: #2 predicted fragment length is 155 bps INFO @ Thu, 08 Oct 2020 20:32:26: #2 alternative fragment length(s) may be 155 bps INFO @ Thu, 08 Oct 2020 20:32:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.20_model.r INFO @ Thu, 08 Oct 2020 20:32:26: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:32:26: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:32:40: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:32:46: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:32:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:32:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832111/SRX8832111.20_summits.bed INFO @ Thu, 08 Oct 2020 20:32:47: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3594 records, 4 fields): 5 millis CompletedMACS2peakCalling