Job ID = 6367919 SRX = SRX4200528 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:40:44 prefetch.2.10.7: 1) Downloading 'SRR7297994'... 2020-06-15T23:40:44 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:51:50 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:51:50 prefetch.2.10.7: 1) 'SRR7297994' was downloaded successfully Read 41636318 spots for SRR7297994/SRR7297994.sra Written 41636318 spots for SRR7297994/SRR7297994.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: 00:15:25 41636318 reads; of these: 41636318 (100.00%) were unpaired; of these: 164136 (0.39%) aligned 0 times 32636668 (78.39%) aligned exactly 1 time 8835514 (21.22%) aligned >1 times 99.61% overall alignment rate Time searching: 00:15:25 Overall time: 00:15:25 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 20 files... [bam_rmdupse_core] 17942662 / 41472182 = 0.4326 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 09:20:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.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 09:20:21: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:20:21: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:20:28: 1000000 INFO @ Tue, 16 Jun 2020 09:20:34: 2000000 INFO @ Tue, 16 Jun 2020 09:20:41: 3000000 INFO @ Tue, 16 Jun 2020 09:20:47: 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 @ Tue, 16 Jun 2020 09:20:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.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 09:20:51: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:20:51: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:20:53: 5000000 INFO @ Tue, 16 Jun 2020 09:20:58: 1000000 INFO @ Tue, 16 Jun 2020 09:21:00: 6000000 INFO @ Tue, 16 Jun 2020 09:21:04: 2000000 INFO @ Tue, 16 Jun 2020 09:21:07: 7000000 INFO @ Tue, 16 Jun 2020 09:21:11: 3000000 INFO @ Tue, 16 Jun 2020 09:21:13: 8000000 INFO @ Tue, 16 Jun 2020 09:21:18: 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 @ Tue, 16 Jun 2020 09:21:20: 9000000 INFO @ Tue, 16 Jun 2020 09:21:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.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 09:21:21: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:21:21: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:21:24: 5000000 INFO @ Tue, 16 Jun 2020 09:21:27: 10000000 INFO @ Tue, 16 Jun 2020 09:21:28: 1000000 INFO @ Tue, 16 Jun 2020 09:21:31: 6000000 INFO @ Tue, 16 Jun 2020 09:21:34: 11000000 INFO @ Tue, 16 Jun 2020 09:21:35: 2000000 INFO @ Tue, 16 Jun 2020 09:21:37: 7000000 INFO @ Tue, 16 Jun 2020 09:21:41: 12000000 INFO @ Tue, 16 Jun 2020 09:21:41: 3000000 INFO @ Tue, 16 Jun 2020 09:21:44: 8000000 INFO @ Tue, 16 Jun 2020 09:21:47: 13000000 INFO @ Tue, 16 Jun 2020 09:21:48: 4000000 INFO @ Tue, 16 Jun 2020 09:21:51: 9000000 INFO @ Tue, 16 Jun 2020 09:21:54: 14000000 INFO @ Tue, 16 Jun 2020 09:21:55: 5000000 INFO @ Tue, 16 Jun 2020 09:21:58: 10000000 INFO @ Tue, 16 Jun 2020 09:22:01: 6000000 INFO @ Tue, 16 Jun 2020 09:22:01: 15000000 INFO @ Tue, 16 Jun 2020 09:22:05: 11000000 INFO @ Tue, 16 Jun 2020 09:22:08: 7000000 INFO @ Tue, 16 Jun 2020 09:22:08: 16000000 INFO @ Tue, 16 Jun 2020 09:22:11: 12000000 INFO @ Tue, 16 Jun 2020 09:22:15: 8000000 INFO @ Tue, 16 Jun 2020 09:22:16: 17000000 INFO @ Tue, 16 Jun 2020 09:22:18: 13000000 INFO @ Tue, 16 Jun 2020 09:22:21: 9000000 INFO @ Tue, 16 Jun 2020 09:22:23: 18000000 INFO @ Tue, 16 Jun 2020 09:22:24: 14000000 INFO @ Tue, 16 Jun 2020 09:22:28: 10000000 INFO @ Tue, 16 Jun 2020 09:22:29: 19000000 INFO @ Tue, 16 Jun 2020 09:22:31: 15000000 INFO @ Tue, 16 Jun 2020 09:22:35: 11000000 INFO @ Tue, 16 Jun 2020 09:22:36: 20000000 INFO @ Tue, 16 Jun 2020 09:22:38: 16000000 INFO @ Tue, 16 Jun 2020 09:22:41: 12000000 INFO @ Tue, 16 Jun 2020 09:22:43: 21000000 INFO @ Tue, 16 Jun 2020 09:22:44: 17000000 INFO @ Tue, 16 Jun 2020 09:22:48: 13000000 INFO @ Tue, 16 Jun 2020 09:22:49: 22000000 INFO @ Tue, 16 Jun 2020 09:22:51: 18000000 INFO @ Tue, 16 Jun 2020 09:22:54: 14000000 INFO @ Tue, 16 Jun 2020 09:22:56: 23000000 INFO @ Tue, 16 Jun 2020 09:22:57: 19000000 INFO @ Tue, 16 Jun 2020 09:23:00: #1 tag size is determined as 75 bps INFO @ Tue, 16 Jun 2020 09:23:00: #1 tag size = 75 INFO @ Tue, 16 Jun 2020 09:23:00: #1 total tags in treatment: 23529520 INFO @ Tue, 16 Jun 2020 09:23:00: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:23:00: #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 09:23:00: #1 tags after filtering in treatment: 23529520 INFO @ Tue, 16 Jun 2020 09:23:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:23:00: #1 finished! INFO @ Tue, 16 Jun 2020 09:23:00: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:23:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:23:01: 15000000 INFO @ Tue, 16 Jun 2020 09:23:02: #2 number of paired peaks: 26 WARNING @ Tue, 16 Jun 2020 09:23:02: Too few paired peaks (26) 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 09:23:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.05_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/ce11/SRX4200528/SRX4200528.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:23:03: 20000000 INFO @ Tue, 16 Jun 2020 09:23:08: 16000000 INFO @ Tue, 16 Jun 2020 09:23:10: 21000000 INFO @ Tue, 16 Jun 2020 09:23:14: 17000000 INFO @ Tue, 16 Jun 2020 09:23:16: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:23:20: 18000000 INFO @ Tue, 16 Jun 2020 09:23:23: 23000000 INFO @ Tue, 16 Jun 2020 09:23:26: #1 tag size is determined as 75 bps INFO @ Tue, 16 Jun 2020 09:23:26: #1 tag size = 75 INFO @ Tue, 16 Jun 2020 09:23:26: #1 total tags in treatment: 23529520 INFO @ Tue, 16 Jun 2020 09:23:26: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:23:26: #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 09:23:27: #1 tags after filtering in treatment: 23529520 INFO @ Tue, 16 Jun 2020 09:23:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:23:27: #1 finished! INFO @ Tue, 16 Jun 2020 09:23:27: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:23:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:23:27: 19000000 INFO @ Tue, 16 Jun 2020 09:23:28: #2 number of paired peaks: 26 WARNING @ Tue, 16 Jun 2020 09:23:28: Too few paired peaks (26) 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 09:23:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.10_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/SRX4200528/SRX4200528.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:23:32: 20000000 INFO @ Tue, 16 Jun 2020 09:23:39: 21000000 INFO @ Tue, 16 Jun 2020 09:23:44: 22000000 INFO @ Tue, 16 Jun 2020 09:23:50: 23000000 INFO @ Tue, 16 Jun 2020 09:23:54: #1 tag size is determined as 75 bps INFO @ Tue, 16 Jun 2020 09:23:54: #1 tag size = 75 INFO @ Tue, 16 Jun 2020 09:23:54: #1 total tags in treatment: 23529520 INFO @ Tue, 16 Jun 2020 09:23:54: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:23:54: #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 09:23:54: #1 tags after filtering in treatment: 23529520 INFO @ Tue, 16 Jun 2020 09:23:54: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:23:54: #1 finished! INFO @ Tue, 16 Jun 2020 09:23:54: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:23:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:23:55: #2 number of paired peaks: 26 WARNING @ Tue, 16 Jun 2020 09:23:55: Too few paired peaks (26) 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 09:23:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.20_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/SRX4200528/SRX4200528.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4200528/SRX4200528.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。