Job ID = 6528251 SRX = SRX495202 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:40:29 prefetch.2.10.7: 1) Downloading 'SRR1198707'... 2020-06-29T14:40:29 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:42:39 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:42:40 prefetch.2.10.7: 'SRR1198707' is valid 2020-06-29T14:42:40 prefetch.2.10.7: 1) 'SRR1198707' was downloaded successfully Read 17633613 spots for SRR1198707/SRR1198707.sra Written 17633613 spots for SRR1198707/SRR1198707.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: 00:06:55 17633613 reads; of these: 17633613 (100.00%) were unpaired; of these: 125279 (0.71%) aligned 0 times 11929111 (67.65%) aligned exactly 1 time 5579223 (31.64%) aligned >1 times 99.29% overall alignment rate Time searching: 00:06:55 Overall time: 00:06:55 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3549702 / 17508334 = 0.2027 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 @ Mon, 29 Jun 2020 23:58:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.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 @ Mon, 29 Jun 2020 23:58:38: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:58:38: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:58:43: 1000000 INFO @ Mon, 29 Jun 2020 23:58:49: 2000000 INFO @ Mon, 29 Jun 2020 23:58:55: 3000000 INFO @ Mon, 29 Jun 2020 23:59:01: 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 @ Mon, 29 Jun 2020 23:59:06: 5000000 INFO @ Mon, 29 Jun 2020 23:59:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.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 @ Mon, 29 Jun 2020 23:59:08: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:59:08: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:59:12: 6000000 INFO @ Mon, 29 Jun 2020 23:59:13: 1000000 INFO @ Mon, 29 Jun 2020 23:59:18: 2000000 INFO @ Mon, 29 Jun 2020 23:59:18: 7000000 INFO @ Mon, 29 Jun 2020 23:59:23: 3000000 INFO @ Mon, 29 Jun 2020 23:59:24: 8000000 INFO @ Mon, 29 Jun 2020 23:59:28: 4000000 INFO @ Mon, 29 Jun 2020 23:59:30: 9000000 INFO @ Mon, 29 Jun 2020 23:59:33: 5000000 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 @ Mon, 29 Jun 2020 23:59:36: 10000000 INFO @ Mon, 29 Jun 2020 23:59:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.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 @ Mon, 29 Jun 2020 23:59:38: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:59:38: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:59:38: 6000000 INFO @ Mon, 29 Jun 2020 23:59:42: 11000000 INFO @ Mon, 29 Jun 2020 23:59:43: 1000000 INFO @ Mon, 29 Jun 2020 23:59:43: 7000000 INFO @ Mon, 29 Jun 2020 23:59:48: 2000000 INFO @ Mon, 29 Jun 2020 23:59:48: 12000000 INFO @ Mon, 29 Jun 2020 23:59:49: 8000000 INFO @ Mon, 29 Jun 2020 23:59:53: 3000000 INFO @ Mon, 29 Jun 2020 23:59:54: 9000000 INFO @ Mon, 29 Jun 2020 23:59:54: 13000000 INFO @ Mon, 29 Jun 2020 23:59:58: 4000000 INFO @ Mon, 29 Jun 2020 23:59:59: 10000000 INFO @ Mon, 29 Jun 2020 23:59:59: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:59:59: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:59:59: #1 total tags in treatment: 13958632 INFO @ Mon, 29 Jun 2020 23:59:59: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:59:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:00:00: #1 tags after filtering in treatment: 13958632 INFO @ Tue, 30 Jun 2020 00:00:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:00:00: #1 finished! INFO @ Tue, 30 Jun 2020 00:00:00: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:00:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:00:00: #2 number of paired peaks: 45 WARNING @ Tue, 30 Jun 2020 00:00:00: Too few paired peaks (45) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 30 Jun 2020 00:00:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:00:03: 5000000 INFO @ Tue, 30 Jun 2020 00:00:04: 11000000 INFO @ Tue, 30 Jun 2020 00:00:08: 6000000 INFO @ Tue, 30 Jun 2020 00:00:09: 12000000 INFO @ Tue, 30 Jun 2020 00:00:13: 7000000 INFO @ Tue, 30 Jun 2020 00:00:14: 13000000 INFO @ Tue, 30 Jun 2020 00:00:18: 8000000 INFO @ Tue, 30 Jun 2020 00:00:19: #1 tag size is determined as 44 bps INFO @ Tue, 30 Jun 2020 00:00:19: #1 tag size = 44 INFO @ Tue, 30 Jun 2020 00:00:19: #1 total tags in treatment: 13958632 INFO @ Tue, 30 Jun 2020 00:00:19: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:00:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:00:19: #1 tags after filtering in treatment: 13958632 INFO @ Tue, 30 Jun 2020 00:00:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:00:19: #1 finished! INFO @ Tue, 30 Jun 2020 00:00:19: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:00:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:00:20: #2 number of paired peaks: 45 WARNING @ Tue, 30 Jun 2020 00:00:20: Too few paired peaks (45) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 30 Jun 2020 00:00:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:00:23: 9000000 INFO @ Tue, 30 Jun 2020 00:00:28: 10000000 INFO @ Tue, 30 Jun 2020 00:00:33: 11000000 INFO @ Tue, 30 Jun 2020 00:00:38: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:00:43: 13000000 INFO @ Tue, 30 Jun 2020 00:00:48: #1 tag size is determined as 44 bps INFO @ Tue, 30 Jun 2020 00:00:48: #1 tag size = 44 INFO @ Tue, 30 Jun 2020 00:00:48: #1 total tags in treatment: 13958632 INFO @ Tue, 30 Jun 2020 00:00:48: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:00:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:00:48: #1 tags after filtering in treatment: 13958632 INFO @ Tue, 30 Jun 2020 00:00:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:00:48: #1 finished! INFO @ Tue, 30 Jun 2020 00:00:48: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:00:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:00:49: #2 number of paired peaks: 45 WARNING @ Tue, 30 Jun 2020 00:00:49: Too few paired peaks (45) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 30 Jun 2020 00:00:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495202/SRX495202.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。