Job ID = 6366555 SRX = SRX1936233 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T22:50:26 prefetch.2.10.7: 1) Downloading 'SRR3879839'... 2020-06-15T22:50:26 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T22:52:47 prefetch.2.10.7: HTTPS download succeed 2020-06-15T22:52:47 prefetch.2.10.7: 1) 'SRR3879839' was downloaded successfully Read 27895923 spots for SRR3879839/SRR3879839.sra Written 27895923 spots for SRR3879839/SRR3879839.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: 00:06:43 27895923 reads; of these: 27895923 (100.00%) were unpaired; of these: 651104 (2.33%) aligned 0 times 23269887 (83.42%) aligned exactly 1 time 3974932 (14.25%) aligned >1 times 97.67% overall alignment rate Time searching: 00:06:43 Overall time: 00:06:43 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 12 files... [bam_rmdupse_core] 3688920 / 27244819 = 0.1354 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 08:07:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.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 08:07:33: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:07:33: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:07:39: 1000000 INFO @ Tue, 16 Jun 2020 08:07:45: 2000000 INFO @ Tue, 16 Jun 2020 08:07:50: 3000000 INFO @ Tue, 16 Jun 2020 08:07:56: 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 08:08:01: 5000000 INFO @ Tue, 16 Jun 2020 08:08:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.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 08:08:03: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:08:03: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:08:07: 6000000 INFO @ Tue, 16 Jun 2020 08:08:10: 1000000 INFO @ Tue, 16 Jun 2020 08:08:14: 7000000 INFO @ Tue, 16 Jun 2020 08:08:17: 2000000 INFO @ Tue, 16 Jun 2020 08:08:20: 8000000 INFO @ Tue, 16 Jun 2020 08:08:24: 3000000 INFO @ Tue, 16 Jun 2020 08:08:27: 9000000 INFO @ Tue, 16 Jun 2020 08:08:31: 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 08:08:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.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 08:08:33: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:08:33: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:08:34: 10000000 INFO @ Tue, 16 Jun 2020 08:08:38: 5000000 INFO @ Tue, 16 Jun 2020 08:08:40: 1000000 INFO @ Tue, 16 Jun 2020 08:08:41: 11000000 INFO @ Tue, 16 Jun 2020 08:08:45: 6000000 INFO @ Tue, 16 Jun 2020 08:08:47: 12000000 INFO @ Tue, 16 Jun 2020 08:08:47: 2000000 INFO @ Tue, 16 Jun 2020 08:08:52: 7000000 INFO @ Tue, 16 Jun 2020 08:08:54: 13000000 INFO @ Tue, 16 Jun 2020 08:08:54: 3000000 INFO @ Tue, 16 Jun 2020 08:08:59: 8000000 INFO @ Tue, 16 Jun 2020 08:09:00: 14000000 INFO @ Tue, 16 Jun 2020 08:09:01: 4000000 INFO @ Tue, 16 Jun 2020 08:09:07: 9000000 INFO @ Tue, 16 Jun 2020 08:09:07: 15000000 INFO @ Tue, 16 Jun 2020 08:09:09: 5000000 INFO @ Tue, 16 Jun 2020 08:09:14: 16000000 INFO @ Tue, 16 Jun 2020 08:09:14: 10000000 INFO @ Tue, 16 Jun 2020 08:09:16: 6000000 INFO @ Tue, 16 Jun 2020 08:09:20: 17000000 INFO @ Tue, 16 Jun 2020 08:09:21: 11000000 INFO @ Tue, 16 Jun 2020 08:09:24: 7000000 INFO @ Tue, 16 Jun 2020 08:09:27: 18000000 INFO @ Tue, 16 Jun 2020 08:09:29: 12000000 INFO @ Tue, 16 Jun 2020 08:09:31: 8000000 INFO @ Tue, 16 Jun 2020 08:09:33: 19000000 INFO @ Tue, 16 Jun 2020 08:09:36: 13000000 INFO @ Tue, 16 Jun 2020 08:09:39: 9000000 INFO @ Tue, 16 Jun 2020 08:09:40: 20000000 INFO @ Tue, 16 Jun 2020 08:09:44: 14000000 INFO @ Tue, 16 Jun 2020 08:09:46: 10000000 INFO @ Tue, 16 Jun 2020 08:09:46: 21000000 INFO @ Tue, 16 Jun 2020 08:09:51: 15000000 INFO @ Tue, 16 Jun 2020 08:09:53: 22000000 INFO @ Tue, 16 Jun 2020 08:09:54: 11000000 INFO @ Tue, 16 Jun 2020 08:09:59: 16000000 INFO @ Tue, 16 Jun 2020 08:09:59: 23000000 INFO @ Tue, 16 Jun 2020 08:10:01: 12000000 INFO @ Tue, 16 Jun 2020 08:10:03: #1 tag size is determined as 52 bps INFO @ Tue, 16 Jun 2020 08:10:03: #1 tag size = 52 INFO @ Tue, 16 Jun 2020 08:10:03: #1 total tags in treatment: 23555899 INFO @ Tue, 16 Jun 2020 08:10:03: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:10:03: #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 08:10:04: #1 tags after filtering in treatment: 23555899 INFO @ Tue, 16 Jun 2020 08:10:04: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:10:04: #1 finished! INFO @ Tue, 16 Jun 2020 08:10:04: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:10:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:10:05: #2 number of paired peaks: 58 WARNING @ Tue, 16 Jun 2020 08:10:05: Too few paired peaks (58) 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 08:10:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.05_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/SRX1936233/SRX1936233.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:10:06: 17000000 INFO @ Tue, 16 Jun 2020 08:10:09: 13000000 INFO @ Tue, 16 Jun 2020 08:10:14: 18000000 INFO @ Tue, 16 Jun 2020 08:10:16: 14000000 INFO @ Tue, 16 Jun 2020 08:10:21: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:10:23: 15000000 INFO @ Tue, 16 Jun 2020 08:10:29: 20000000 INFO @ Tue, 16 Jun 2020 08:10:31: 16000000 INFO @ Tue, 16 Jun 2020 08:10:36: 21000000 INFO @ Tue, 16 Jun 2020 08:10:38: 17000000 INFO @ Tue, 16 Jun 2020 08:10:44: 22000000 INFO @ Tue, 16 Jun 2020 08:10:45: 18000000 INFO @ Tue, 16 Jun 2020 08:10:51: 23000000 INFO @ Tue, 16 Jun 2020 08:10:53: 19000000 INFO @ Tue, 16 Jun 2020 08:10:55: #1 tag size is determined as 52 bps INFO @ Tue, 16 Jun 2020 08:10:55: #1 tag size = 52 INFO @ Tue, 16 Jun 2020 08:10:55: #1 total tags in treatment: 23555899 INFO @ Tue, 16 Jun 2020 08:10:55: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:10:55: #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 08:10:56: #1 tags after filtering in treatment: 23555899 INFO @ Tue, 16 Jun 2020 08:10:56: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:10:56: #1 finished! INFO @ Tue, 16 Jun 2020 08:10:56: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:10:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:10:57: #2 number of paired peaks: 58 WARNING @ Tue, 16 Jun 2020 08:10:57: Too few paired peaks (58) 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 08:10:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.10_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/SRX1936233/SRX1936233.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:11:00: 20000000 INFO @ Tue, 16 Jun 2020 08:11:07: 21000000 INFO @ Tue, 16 Jun 2020 08:11:13: 22000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 08:11:20: 23000000 INFO @ Tue, 16 Jun 2020 08:11:24: #1 tag size is determined as 52 bps INFO @ Tue, 16 Jun 2020 08:11:24: #1 tag size = 52 INFO @ Tue, 16 Jun 2020 08:11:24: #1 total tags in treatment: 23555899 INFO @ Tue, 16 Jun 2020 08:11:24: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:11:24: #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 08:11:24: #1 tags after filtering in treatment: 23555899 INFO @ Tue, 16 Jun 2020 08:11:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:11:24: #1 finished! INFO @ Tue, 16 Jun 2020 08:11:24: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:11:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:11:26: #2 number of paired peaks: 58 WARNING @ Tue, 16 Jun 2020 08:11:26: Too few paired peaks (58) 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 08:11:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.20_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/SRX1936233/SRX1936233.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1936233/SRX1936233.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling