Job ID = 14157869 SRX = SRX6799187 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 38150350 spots for SRR10065394/SRR10065394.sra Written 38150350 spots for SRR10065394/SRR10065394.sra fastq に変換しました。 bowtie でマッピング中... Your job 14158047 ("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: 00:09:43 38150350 reads; of these: 38150350 (100.00%) were unpaired; of these: 1481496 (3.88%) aligned 0 times 29053593 (76.16%) aligned exactly 1 time 7615261 (19.96%) aligned >1 times 96.12% overall alignment rate Time searching: 00:09:43 Overall time: 00:09:43 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 16 files... [bam_rmdupse_core] 11562172 / 36668854 = 0.3153 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 08 Dec 2021 12:07:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.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 @ Wed, 08 Dec 2021 12:07:45: #1 read tag files... INFO @ Wed, 08 Dec 2021 12:07:45: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 12:07:51: 1000000 INFO @ Wed, 08 Dec 2021 12:07:56: 2000000 INFO @ Wed, 08 Dec 2021 12:08:02: 3000000 INFO @ Wed, 08 Dec 2021 12:08:08: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 08 Dec 2021 12:08:14: 5000000 INFO @ Wed, 08 Dec 2021 12:08:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.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 @ Wed, 08 Dec 2021 12:08:15: #1 read tag files... INFO @ Wed, 08 Dec 2021 12:08:15: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 12:08:20: 6000000 INFO @ Wed, 08 Dec 2021 12:08:21: 1000000 INFO @ Wed, 08 Dec 2021 12:08:26: 7000000 INFO @ Wed, 08 Dec 2021 12:08:27: 2000000 INFO @ Wed, 08 Dec 2021 12:08:32: 8000000 INFO @ Wed, 08 Dec 2021 12:08:34: 3000000 INFO @ Wed, 08 Dec 2021 12:08:38: 9000000 INFO @ Wed, 08 Dec 2021 12:08:40: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 08 Dec 2021 12:08:44: 10000000 INFO @ Wed, 08 Dec 2021 12:08:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.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 @ Wed, 08 Dec 2021 12:08:45: #1 read tag files... INFO @ Wed, 08 Dec 2021 12:08:45: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 12:08:46: 5000000 INFO @ Wed, 08 Dec 2021 12:08:50: 11000000 INFO @ Wed, 08 Dec 2021 12:08:51: 1000000 INFO @ Wed, 08 Dec 2021 12:08:53: 6000000 INFO @ Wed, 08 Dec 2021 12:08:56: 12000000 INFO @ Wed, 08 Dec 2021 12:08:57: 2000000 INFO @ Wed, 08 Dec 2021 12:08:59: 7000000 INFO @ Wed, 08 Dec 2021 12:09:02: 13000000 INFO @ Wed, 08 Dec 2021 12:09:03: 3000000 INFO @ Wed, 08 Dec 2021 12:09:06: 8000000 INFO @ Wed, 08 Dec 2021 12:09:08: 14000000 INFO @ Wed, 08 Dec 2021 12:09:10: 4000000 INFO @ Wed, 08 Dec 2021 12:09:12: 9000000 INFO @ Wed, 08 Dec 2021 12:09:15: 15000000 INFO @ Wed, 08 Dec 2021 12:09:16: 5000000 INFO @ Wed, 08 Dec 2021 12:09:19: 10000000 INFO @ Wed, 08 Dec 2021 12:09:21: 16000000 INFO @ Wed, 08 Dec 2021 12:09:22: 6000000 INFO @ Wed, 08 Dec 2021 12:09:25: 11000000 INFO @ Wed, 08 Dec 2021 12:09:27: 17000000 INFO @ Wed, 08 Dec 2021 12:09:28: 7000000 INFO @ Wed, 08 Dec 2021 12:09:32: 12000000 INFO @ Wed, 08 Dec 2021 12:09:33: 18000000 INFO @ Wed, 08 Dec 2021 12:09:35: 8000000 INFO @ Wed, 08 Dec 2021 12:09:38: 13000000 INFO @ Wed, 08 Dec 2021 12:09:40: 19000000 INFO @ Wed, 08 Dec 2021 12:09:41: 9000000 INFO @ Wed, 08 Dec 2021 12:09:45: 14000000 INFO @ Wed, 08 Dec 2021 12:09:46: 20000000 INFO @ Wed, 08 Dec 2021 12:09:47: 10000000 INFO @ Wed, 08 Dec 2021 12:09:52: 15000000 INFO @ Wed, 08 Dec 2021 12:09:52: 21000000 INFO @ Wed, 08 Dec 2021 12:09:53: 11000000 INFO @ Wed, 08 Dec 2021 12:09:58: 16000000 INFO @ Wed, 08 Dec 2021 12:09:59: 22000000 INFO @ Wed, 08 Dec 2021 12:09:59: 12000000 INFO @ Wed, 08 Dec 2021 12:10:05: 17000000 INFO @ Wed, 08 Dec 2021 12:10:05: 23000000 INFO @ Wed, 08 Dec 2021 12:10:06: 13000000 INFO @ Wed, 08 Dec 2021 12:10:11: 24000000 INFO @ Wed, 08 Dec 2021 12:10:11: 18000000 INFO @ Wed, 08 Dec 2021 12:10:12: 14000000 INFO @ Wed, 08 Dec 2021 12:10:17: 25000000 INFO @ Wed, 08 Dec 2021 12:10:18: 19000000 INFO @ Wed, 08 Dec 2021 12:10:18: #1 tag size is determined as 49 bps INFO @ Wed, 08 Dec 2021 12:10:18: #1 tag size = 49 INFO @ Wed, 08 Dec 2021 12:10:18: #1 total tags in treatment: 25106682 INFO @ Wed, 08 Dec 2021 12:10:18: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 12:10:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 12:10:19: #1 tags after filtering in treatment: 25106682 INFO @ Wed, 08 Dec 2021 12:10:19: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 12:10:19: #1 finished! INFO @ Wed, 08 Dec 2021 12:10:19: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 12:10:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 12:10:19: 15000000 INFO @ Wed, 08 Dec 2021 12:10:20: #2 number of paired peaks: 127 WARNING @ Wed, 08 Dec 2021 12:10:20: Fewer paired peaks (127) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 127 pairs to build model! INFO @ Wed, 08 Dec 2021 12:10:20: start model_add_line... INFO @ Wed, 08 Dec 2021 12:10:20: start X-correlation... INFO @ Wed, 08 Dec 2021 12:10:20: end of X-cor INFO @ Wed, 08 Dec 2021 12:10:20: #2 finished! INFO @ Wed, 08 Dec 2021 12:10:20: #2 predicted fragment length is 138 bps INFO @ Wed, 08 Dec 2021 12:10:20: #2 alternative fragment length(s) may be 3,97,105,138 bps INFO @ Wed, 08 Dec 2021 12:10:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.05_model.r INFO @ Wed, 08 Dec 2021 12:10:20: #3 Call peaks... INFO @ Wed, 08 Dec 2021 12:10:20: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 12:10:24: 20000000 INFO @ Wed, 08 Dec 2021 12:10:25: 16000000 INFO @ Wed, 08 Dec 2021 12:10:31: 21000000 INFO @ Wed, 08 Dec 2021 12:10:31: 17000000 INFO @ Wed, 08 Dec 2021 12:10:37: 22000000 INFO @ Wed, 08 Dec 2021 12:10:38: 18000000 INFO @ Wed, 08 Dec 2021 12:10:44: 23000000 INFO @ Wed, 08 Dec 2021 12:10:44: 19000000 INFO @ Wed, 08 Dec 2021 12:10:50: 20000000 INFO @ Wed, 08 Dec 2021 12:10:51: 24000000 INFO @ Wed, 08 Dec 2021 12:10:57: 21000000 INFO @ Wed, 08 Dec 2021 12:10:57: 25000000 INFO @ Wed, 08 Dec 2021 12:10:58: #1 tag size is determined as 49 bps INFO @ Wed, 08 Dec 2021 12:10:58: #1 tag size = 49 INFO @ Wed, 08 Dec 2021 12:10:58: #1 total tags in treatment: 25106682 INFO @ Wed, 08 Dec 2021 12:10:58: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 12:10:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 12:10:58: #1 tags after filtering in treatment: 25106682 INFO @ Wed, 08 Dec 2021 12:10:58: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 12:10:58: #1 finished! INFO @ Wed, 08 Dec 2021 12:10:58: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 12:10:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 12:11:00: #2 number of paired peaks: 127 WARNING @ Wed, 08 Dec 2021 12:11:00: Fewer paired peaks (127) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 127 pairs to build model! INFO @ Wed, 08 Dec 2021 12:11:00: start model_add_line... INFO @ Wed, 08 Dec 2021 12:11:00: start X-correlation... INFO @ Wed, 08 Dec 2021 12:11:00: end of X-cor INFO @ Wed, 08 Dec 2021 12:11:00: #2 finished! INFO @ Wed, 08 Dec 2021 12:11:00: #2 predicted fragment length is 138 bps INFO @ Wed, 08 Dec 2021 12:11:00: #2 alternative fragment length(s) may be 3,97,105,138 bps INFO @ Wed, 08 Dec 2021 12:11:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.10_model.r INFO @ Wed, 08 Dec 2021 12:11:00: #3 Call peaks... INFO @ Wed, 08 Dec 2021 12:11:00: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 12:11:03: 22000000 INFO @ Wed, 08 Dec 2021 12:11:04: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 12:11:09: 23000000 BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 12:11:15: 24000000 INFO @ Wed, 08 Dec 2021 12:11:22: 25000000 INFO @ Wed, 08 Dec 2021 12:11:22: #1 tag size is determined as 49 bps INFO @ Wed, 08 Dec 2021 12:11:22: #1 tag size = 49 INFO @ Wed, 08 Dec 2021 12:11:22: #1 total tags in treatment: 25106682 INFO @ Wed, 08 Dec 2021 12:11:22: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 12:11:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 12:11:23: #1 tags after filtering in treatment: 25106682 INFO @ Wed, 08 Dec 2021 12:11:23: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 12:11:23: #1 finished! INFO @ Wed, 08 Dec 2021 12:11:23: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 12:11:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 12:11:24: #2 number of paired peaks: 127 WARNING @ Wed, 08 Dec 2021 12:11:24: Fewer paired peaks (127) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 127 pairs to build model! INFO @ Wed, 08 Dec 2021 12:11:24: start model_add_line... INFO @ Wed, 08 Dec 2021 12:11:24: start X-correlation... INFO @ Wed, 08 Dec 2021 12:11:24: end of X-cor INFO @ Wed, 08 Dec 2021 12:11:24: #2 finished! INFO @ Wed, 08 Dec 2021 12:11:24: #2 predicted fragment length is 138 bps INFO @ Wed, 08 Dec 2021 12:11:24: #2 alternative fragment length(s) may be 3,97,105,138 bps INFO @ Wed, 08 Dec 2021 12:11:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.20_model.r INFO @ Wed, 08 Dec 2021 12:11:24: #3 Call peaks... INFO @ Wed, 08 Dec 2021 12:11:24: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 12:11:26: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.05_peaks.xls INFO @ Wed, 08 Dec 2021 12:11:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 12:11:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.05_summits.bed INFO @ Wed, 08 Dec 2021 12:11:26: Done! pass1 - making usageList (7 chroms): 3 millis pass2 - checking and writing primary data (14455 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 12:11:46: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 12:12:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.10_peaks.xls INFO @ Wed, 08 Dec 2021 12:12:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 12:12:09: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 12:12:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.10_summits.bed INFO @ Wed, 08 Dec 2021 12:12:09: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (9221 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 12:12:31: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.20_peaks.xls INFO @ Wed, 08 Dec 2021 12:12:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 12:12:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6799187/SRX6799187.20_summits.bed INFO @ Wed, 08 Dec 2021 12:12:31: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3408 records, 4 fields): 4 millis CompletedMACS2peakCalling