Job ID = 10165692 SRX = SRX8832064 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 28425778 spots for SRR12332006/SRR12332006.sra Written 28425778 spots for SRR12332006/SRR12332006.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165903 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:37 28425778 reads; of these: 28425778 (100.00%) were unpaired; of these: 1279389 (4.50%) aligned 0 times 23137526 (81.40%) aligned exactly 1 time 4008863 (14.10%) aligned >1 times 95.50% overall alignment rate Time searching: 00:05:37 Overall time: 00:05:37 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_sort_core] merging from 12 files... [bam_rmdupse_core] 5656883 / 27146389 = 0.2084 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 19:48:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.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 19:48:46: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:48:46: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:48:52: 1000000 INFO @ Thu, 08 Oct 2020 19:48:58: 2000000 INFO @ Thu, 08 Oct 2020 19:49:03: 3000000 INFO @ Thu, 08 Oct 2020 19:49:09: 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 @ Thu, 08 Oct 2020 19:49:15: 5000000 INFO @ Thu, 08 Oct 2020 19:49:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.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 19:49:16: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:49:16: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:49:21: 6000000 INFO @ Thu, 08 Oct 2020 19:49:22: 1000000 INFO @ Thu, 08 Oct 2020 19:49:27: 7000000 INFO @ Thu, 08 Oct 2020 19:49:28: 2000000 INFO @ Thu, 08 Oct 2020 19:49:33: 8000000 INFO @ Thu, 08 Oct 2020 19:49:34: 3000000 INFO @ Thu, 08 Oct 2020 19:49:39: 9000000 INFO @ Thu, 08 Oct 2020 19:49:41: 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 @ Thu, 08 Oct 2020 19:49:45: 10000000 INFO @ Thu, 08 Oct 2020 19:49:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.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 19:49:46: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:49:46: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:49:47: 5000000 INFO @ Thu, 08 Oct 2020 19:49:51: 11000000 INFO @ Thu, 08 Oct 2020 19:49:52: 1000000 INFO @ Thu, 08 Oct 2020 19:49:53: 6000000 INFO @ Thu, 08 Oct 2020 19:49:57: 12000000 INFO @ Thu, 08 Oct 2020 19:49:58: 2000000 INFO @ Thu, 08 Oct 2020 19:49:59: 7000000 INFO @ Thu, 08 Oct 2020 19:50:03: 13000000 INFO @ Thu, 08 Oct 2020 19:50:03: 3000000 INFO @ Thu, 08 Oct 2020 19:50:06: 8000000 INFO @ Thu, 08 Oct 2020 19:50:10: 14000000 INFO @ Thu, 08 Oct 2020 19:50:10: 4000000 INFO @ Thu, 08 Oct 2020 19:50:12: 9000000 INFO @ Thu, 08 Oct 2020 19:50:16: 5000000 INFO @ Thu, 08 Oct 2020 19:50:16: 15000000 INFO @ Thu, 08 Oct 2020 19:50:18: 10000000 INFO @ Thu, 08 Oct 2020 19:50:22: 6000000 INFO @ Thu, 08 Oct 2020 19:50:22: 16000000 INFO @ Thu, 08 Oct 2020 19:50:24: 11000000 INFO @ Thu, 08 Oct 2020 19:50:27: 7000000 INFO @ Thu, 08 Oct 2020 19:50:28: 17000000 INFO @ Thu, 08 Oct 2020 19:50:30: 12000000 INFO @ Thu, 08 Oct 2020 19:50:33: 8000000 INFO @ Thu, 08 Oct 2020 19:50:34: 18000000 INFO @ Thu, 08 Oct 2020 19:50:36: 13000000 INFO @ Thu, 08 Oct 2020 19:50:39: 9000000 INFO @ Thu, 08 Oct 2020 19:50:40: 19000000 INFO @ Thu, 08 Oct 2020 19:50:43: 14000000 INFO @ Thu, 08 Oct 2020 19:50:45: 10000000 INFO @ Thu, 08 Oct 2020 19:50:46: 20000000 INFO @ Thu, 08 Oct 2020 19:50:49: 15000000 INFO @ Thu, 08 Oct 2020 19:50:51: 11000000 INFO @ Thu, 08 Oct 2020 19:50:52: 21000000 INFO @ Thu, 08 Oct 2020 19:50:55: 16000000 INFO @ Thu, 08 Oct 2020 19:50:55: #1 tag size is determined as 51 bps INFO @ Thu, 08 Oct 2020 19:50:55: #1 tag size = 51 INFO @ Thu, 08 Oct 2020 19:50:55: #1 total tags in treatment: 21489506 INFO @ Thu, 08 Oct 2020 19:50:55: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:50:55: #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 19:50:56: #1 tags after filtering in treatment: 21489506 INFO @ Thu, 08 Oct 2020 19:50:56: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:50:56: #1 finished! INFO @ Thu, 08 Oct 2020 19:50:56: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:50:56: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:50:57: 12000000 INFO @ Thu, 08 Oct 2020 19:50:57: #2 number of paired peaks: 520 WARNING @ Thu, 08 Oct 2020 19:50:57: Fewer paired peaks (520) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 520 pairs to build model! INFO @ Thu, 08 Oct 2020 19:50:57: start model_add_line... INFO @ Thu, 08 Oct 2020 19:50:58: start X-correlation... INFO @ Thu, 08 Oct 2020 19:50:58: end of X-cor INFO @ Thu, 08 Oct 2020 19:50:58: #2 finished! INFO @ Thu, 08 Oct 2020 19:50:58: #2 predicted fragment length is 171 bps INFO @ Thu, 08 Oct 2020 19:50:58: #2 alternative fragment length(s) may be 3,171 bps INFO @ Thu, 08 Oct 2020 19:50:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.05_model.r INFO @ Thu, 08 Oct 2020 19:50:58: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:50:58: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:51:01: 17000000 INFO @ Thu, 08 Oct 2020 19:51:02: 13000000 INFO @ Thu, 08 Oct 2020 19:51:06: 18000000 INFO @ Thu, 08 Oct 2020 19:51:08: 14000000 INFO @ Thu, 08 Oct 2020 19:51:12: 19000000 INFO @ Thu, 08 Oct 2020 19:51:14: 15000000 INFO @ Thu, 08 Oct 2020 19:51:18: 20000000 INFO @ Thu, 08 Oct 2020 19:51:20: 16000000 INFO @ Thu, 08 Oct 2020 19:51:24: 21000000 INFO @ Thu, 08 Oct 2020 19:51:26: 17000000 INFO @ Thu, 08 Oct 2020 19:51:27: #1 tag size is determined as 51 bps INFO @ Thu, 08 Oct 2020 19:51:27: #1 tag size = 51 INFO @ Thu, 08 Oct 2020 19:51:27: #1 total tags in treatment: 21489506 INFO @ Thu, 08 Oct 2020 19:51:27: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:51:27: #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 19:51:27: #1 tags after filtering in treatment: 21489506 INFO @ Thu, 08 Oct 2020 19:51:27: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:51:27: #1 finished! INFO @ Thu, 08 Oct 2020 19:51:27: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:51:27: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:51:29: #2 number of paired peaks: 520 WARNING @ Thu, 08 Oct 2020 19:51:29: Fewer paired peaks (520) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 520 pairs to build model! INFO @ Thu, 08 Oct 2020 19:51:29: start model_add_line... INFO @ Thu, 08 Oct 2020 19:51:29: start X-correlation... INFO @ Thu, 08 Oct 2020 19:51:29: end of X-cor INFO @ Thu, 08 Oct 2020 19:51:29: #2 finished! INFO @ Thu, 08 Oct 2020 19:51:29: #2 predicted fragment length is 171 bps INFO @ Thu, 08 Oct 2020 19:51:29: #2 alternative fragment length(s) may be 3,171 bps INFO @ Thu, 08 Oct 2020 19:51:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.10_model.r INFO @ Thu, 08 Oct 2020 19:51:29: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:51:29: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:51:31: 18000000 INFO @ Thu, 08 Oct 2020 19:51:37: 19000000 INFO @ Thu, 08 Oct 2020 19:51:43: 20000000 INFO @ Thu, 08 Oct 2020 19:51:45: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:51:48: 21000000 INFO @ Thu, 08 Oct 2020 19:51:51: #1 tag size is determined as 51 bps INFO @ Thu, 08 Oct 2020 19:51:51: #1 tag size = 51 INFO @ Thu, 08 Oct 2020 19:51:51: #1 total tags in treatment: 21489506 INFO @ Thu, 08 Oct 2020 19:51:51: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:51:51: #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 19:51:52: #1 tags after filtering in treatment: 21489506 INFO @ Thu, 08 Oct 2020 19:51:52: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:51:52: #1 finished! INFO @ Thu, 08 Oct 2020 19:51:52: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:51:52: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:51:53: #2 number of paired peaks: 520 WARNING @ Thu, 08 Oct 2020 19:51:53: Fewer paired peaks (520) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 520 pairs to build model! INFO @ Thu, 08 Oct 2020 19:51:53: start model_add_line... INFO @ Thu, 08 Oct 2020 19:51:53: start X-correlation... INFO @ Thu, 08 Oct 2020 19:51:53: end of X-cor INFO @ Thu, 08 Oct 2020 19:51:53: #2 finished! INFO @ Thu, 08 Oct 2020 19:51:53: #2 predicted fragment length is 171 bps INFO @ Thu, 08 Oct 2020 19:51:53: #2 alternative fragment length(s) may be 3,171 bps INFO @ Thu, 08 Oct 2020 19:51:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.20_model.r INFO @ Thu, 08 Oct 2020 19:51:53: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:51:53: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:52:04: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:52:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:52:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.05_summits.bed INFO @ Thu, 08 Oct 2020 19:52:04: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (9580 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:52:16: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:52:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:52:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:52:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.10_summits.bed INFO @ Thu, 08 Oct 2020 19:52:35: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (7033 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:52:41: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:53:00: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:53:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:53:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832064/SRX8832064.20_summits.bed INFO @ Thu, 08 Oct 2020 19:53:00: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4057 records, 4 fields): 6 millis CompletedMACS2peakCalling