Job ID = 6366066 SRX = SRX059238 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T22:11:27 prefetch.2.10.7: 1) Downloading 'SRR190678'... 2020-06-15T22:11:27 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T22:13:33 prefetch.2.10.7: HTTPS download succeed 2020-06-15T22:13:33 prefetch.2.10.7: 1) 'SRR190678' was downloaded successfully Read 27166289 spots for SRR190678/SRR190678.sra Written 27166289 spots for SRR190678/SRR190678.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: 00:04:21 27166289 reads; of these: 27166289 (100.00%) were unpaired; of these: 524037 (1.93%) aligned 0 times 22842745 (84.08%) aligned exactly 1 time 3799507 (13.99%) aligned >1 times 98.07% overall alignment rate Time searching: 00:04:21 Overall time: 00:04:21 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 8 files... [bam_rmdupse_core] 3872969 / 26642252 = 0.1454 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 07:26:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.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 07:26:42: #1 read tag files... INFO @ Tue, 16 Jun 2020 07:26:42: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 07:26:50: 1000000 INFO @ Tue, 16 Jun 2020 07:26:59: 2000000 INFO @ Tue, 16 Jun 2020 07:27:07: 3000000 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 07:27:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.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 07:27:12: #1 read tag files... INFO @ Tue, 16 Jun 2020 07:27:12: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 07:27:15: 4000000 INFO @ Tue, 16 Jun 2020 07:27:20: 1000000 INFO @ Tue, 16 Jun 2020 07:27:23: 5000000 INFO @ Tue, 16 Jun 2020 07:27:29: 2000000 INFO @ Tue, 16 Jun 2020 07:27:32: 6000000 INFO @ Tue, 16 Jun 2020 07:27:37: 3000000 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 07:27:40: 7000000 INFO @ Tue, 16 Jun 2020 07:27:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.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 07:27:42: #1 read tag files... INFO @ Tue, 16 Jun 2020 07:27:42: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 07:27:45: 4000000 INFO @ Tue, 16 Jun 2020 07:27:49: 8000000 INFO @ Tue, 16 Jun 2020 07:27:51: 1000000 INFO @ Tue, 16 Jun 2020 07:27:54: 5000000 INFO @ Tue, 16 Jun 2020 07:27:57: 9000000 INFO @ Tue, 16 Jun 2020 07:27:59: 2000000 INFO @ Tue, 16 Jun 2020 07:28:02: 6000000 INFO @ Tue, 16 Jun 2020 07:28:05: 10000000 INFO @ Tue, 16 Jun 2020 07:28:07: 3000000 INFO @ Tue, 16 Jun 2020 07:28:11: 7000000 INFO @ Tue, 16 Jun 2020 07:28:14: 11000000 INFO @ Tue, 16 Jun 2020 07:28:16: 4000000 INFO @ Tue, 16 Jun 2020 07:28:19: 8000000 INFO @ Tue, 16 Jun 2020 07:28:22: 12000000 INFO @ Tue, 16 Jun 2020 07:28:24: 5000000 INFO @ Tue, 16 Jun 2020 07:28:27: 9000000 INFO @ Tue, 16 Jun 2020 07:28:30: 13000000 INFO @ Tue, 16 Jun 2020 07:28:32: 6000000 INFO @ Tue, 16 Jun 2020 07:28:35: 10000000 INFO @ Tue, 16 Jun 2020 07:28:39: 14000000 INFO @ Tue, 16 Jun 2020 07:28:40: 7000000 INFO @ Tue, 16 Jun 2020 07:28:44: 11000000 INFO @ Tue, 16 Jun 2020 07:28:47: 15000000 INFO @ Tue, 16 Jun 2020 07:28:49: 8000000 INFO @ Tue, 16 Jun 2020 07:28:52: 12000000 INFO @ Tue, 16 Jun 2020 07:28:56: 16000000 INFO @ Tue, 16 Jun 2020 07:28:57: 9000000 INFO @ Tue, 16 Jun 2020 07:29:01: 13000000 INFO @ Tue, 16 Jun 2020 07:29:04: 17000000 INFO @ Tue, 16 Jun 2020 07:29:06: 10000000 INFO @ Tue, 16 Jun 2020 07:29:10: 14000000 INFO @ Tue, 16 Jun 2020 07:29:13: 18000000 INFO @ Tue, 16 Jun 2020 07:29:15: 11000000 INFO @ Tue, 16 Jun 2020 07:29:18: 15000000 INFO @ Tue, 16 Jun 2020 07:29:22: 19000000 INFO @ Tue, 16 Jun 2020 07:29:23: 12000000 INFO @ Tue, 16 Jun 2020 07:29:27: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 07:29:30: 20000000 INFO @ Tue, 16 Jun 2020 07:29:32: 13000000 INFO @ Tue, 16 Jun 2020 07:29:36: 17000000 INFO @ Tue, 16 Jun 2020 07:29:39: 21000000 INFO @ Tue, 16 Jun 2020 07:29:40: 14000000 INFO @ Tue, 16 Jun 2020 07:29:44: 18000000 INFO @ Tue, 16 Jun 2020 07:29:48: 22000000 INFO @ Tue, 16 Jun 2020 07:29:49: 15000000 INFO @ Tue, 16 Jun 2020 07:29:53: 19000000 INFO @ Tue, 16 Jun 2020 07:29:54: #1 tag size is determined as 36 bps INFO @ Tue, 16 Jun 2020 07:29:54: #1 tag size = 36 INFO @ Tue, 16 Jun 2020 07:29:54: #1 total tags in treatment: 22769283 INFO @ Tue, 16 Jun 2020 07:29:54: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 07:29:54: #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 07:29:55: #1 tags after filtering in treatment: 22769283 INFO @ Tue, 16 Jun 2020 07:29:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 07:29:55: #1 finished! INFO @ Tue, 16 Jun 2020 07:29:55: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 07:29:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 07:29:56: #2 number of paired peaks: 93 WARNING @ Tue, 16 Jun 2020 07:29:56: Too few paired peaks (93) 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, 16 Jun 2020 07:29:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.05_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/ce11/SRX059238/SRX059238.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 07:29:58: 16000000 INFO @ Tue, 16 Jun 2020 07:30:01: 20000000 INFO @ Tue, 16 Jun 2020 07:30:06: 17000000 INFO @ Tue, 16 Jun 2020 07:30:10: 21000000 INFO @ Tue, 16 Jun 2020 07:30:15: 18000000 INFO @ Tue, 16 Jun 2020 07:30:18: 22000000 INFO @ Tue, 16 Jun 2020 07:30:23: 19000000 INFO @ Tue, 16 Jun 2020 07:30:25: #1 tag size is determined as 36 bps INFO @ Tue, 16 Jun 2020 07:30:25: #1 tag size = 36 INFO @ Tue, 16 Jun 2020 07:30:25: #1 total tags in treatment: 22769283 INFO @ Tue, 16 Jun 2020 07:30:25: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 07:30:25: #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 07:30:25: #1 tags after filtering in treatment: 22769283 INFO @ Tue, 16 Jun 2020 07:30:25: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 07:30:25: #1 finished! INFO @ Tue, 16 Jun 2020 07:30:25: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 07:30:25: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 07:30:27: #2 number of paired peaks: 93 WARNING @ Tue, 16 Jun 2020 07:30:27: Too few paired peaks (93) 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, 16 Jun 2020 07:30:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.10_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/ce11/SRX059238/SRX059238.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 07:30:31: 20000000 INFO @ Tue, 16 Jun 2020 07:30:39: 21000000 INFO @ Tue, 16 Jun 2020 07:30:47: 22000000 INFO @ Tue, 16 Jun 2020 07:30:53: #1 tag size is determined as 36 bps INFO @ Tue, 16 Jun 2020 07:30:53: #1 tag size = 36 INFO @ Tue, 16 Jun 2020 07:30:53: #1 total tags in treatment: 22769283 INFO @ Tue, 16 Jun 2020 07:30:53: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 07:30:53: #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 07:30:53: #1 tags after filtering in treatment: 22769283 INFO @ Tue, 16 Jun 2020 07:30:53: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 07:30:53: #1 finished! INFO @ Tue, 16 Jun 2020 07:30:53: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 07:30:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 07:30:55: #2 number of paired peaks: 93 WARNING @ Tue, 16 Jun 2020 07:30:55: Too few paired peaks (93) 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, 16 Jun 2020 07:30:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.20_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/ce11/SRX059238/SRX059238.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX059238/SRX059238.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling