Job ID = 6367734 SRX = SRX4082348 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:34:20 prefetch.2.10.7: 1) Downloading 'SRR7164166'... 2020-06-15T23:34:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:35:57 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:35:57 prefetch.2.10.7: 'SRR7164166' is valid 2020-06-15T23:35:57 prefetch.2.10.7: 1) 'SRR7164166' was downloaded successfully 2020-06-15T23:35:57 prefetch.2.10.7: 'SRR7164166' has 0 unresolved dependencies Read 12002611 spots for SRR7164166/SRR7164166.sra Written 12002611 spots for SRR7164166/SRR7164166.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: 00:02:31 12002611 reads; of these: 12002611 (100.00%) were unpaired; of these: 1494720 (12.45%) aligned 0 times 9294759 (77.44%) aligned exactly 1 time 1213132 (10.11%) aligned >1 times 87.55% overall alignment rate Time searching: 00:02:31 Overall time: 00:02:31 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] 1519270 / 10507891 = 0.1446 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 08:41:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.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 08:41:56: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:41:56: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:42:01: 1000000 INFO @ Tue, 16 Jun 2020 08:42:06: 2000000 INFO @ Tue, 16 Jun 2020 08:42:11: 3000000 INFO @ Tue, 16 Jun 2020 08:42:16: 4000000 INFO @ Tue, 16 Jun 2020 08:42:21: 5000000 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 08:42:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.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 08:42:26: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:42:26: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:42:26: 6000000 INFO @ Tue, 16 Jun 2020 08:42:32: 1000000 INFO @ Tue, 16 Jun 2020 08:42:32: 7000000 INFO @ Tue, 16 Jun 2020 08:42:37: 8000000 INFO @ Tue, 16 Jun 2020 08:42:38: 2000000 INFO @ Tue, 16 Jun 2020 08:42:43: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 08:42:43: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 08:42:43: #1 total tags in treatment: 8988621 INFO @ Tue, 16 Jun 2020 08:42:43: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:42:43: #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 08:42:43: #1 tags after filtering in treatment: 8988621 INFO @ Tue, 16 Jun 2020 08:42:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:42:43: #1 finished! INFO @ Tue, 16 Jun 2020 08:42:43: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:42:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:42:44: #2 number of paired peaks: 90 WARNING @ Tue, 16 Jun 2020 08:42:44: Too few paired peaks (90) 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 08:42:44: Process for pairing-model is terminated! INFO @ Tue, 16 Jun 2020 08:42:44: 3000000 cut: /home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.05_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/SRX4082348/SRX4082348.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:42:49: 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 08:42:54: 5000000 INFO @ Tue, 16 Jun 2020 08:42:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.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 08:42:56: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:42:56: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:43:00: 6000000 INFO @ Tue, 16 Jun 2020 08:43:01: 1000000 INFO @ Tue, 16 Jun 2020 08:43:05: 7000000 INFO @ Tue, 16 Jun 2020 08:43:07: 2000000 INFO @ Tue, 16 Jun 2020 08:43:11: 8000000 INFO @ Tue, 16 Jun 2020 08:43:12: 3000000 INFO @ Tue, 16 Jun 2020 08:43:16: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 08:43:16: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 08:43:16: #1 total tags in treatment: 8988621 INFO @ Tue, 16 Jun 2020 08:43:16: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:43:16: #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 08:43:16: #1 tags after filtering in treatment: 8988621 INFO @ Tue, 16 Jun 2020 08:43:16: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:43:16: #1 finished! INFO @ Tue, 16 Jun 2020 08:43:16: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:43:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:43:17: #2 number of paired peaks: 90 WARNING @ Tue, 16 Jun 2020 08:43:17: Too few paired peaks (90) 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 08:43:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.10_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/SRX4082348/SRX4082348.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:43:17: 4000000 INFO @ Tue, 16 Jun 2020 08:43:23: 5000000 INFO @ Tue, 16 Jun 2020 08:43:28: 6000000 INFO @ Tue, 16 Jun 2020 08:43:33: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:43:38: 8000000 INFO @ Tue, 16 Jun 2020 08:43:44: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 08:43:44: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 08:43:44: #1 total tags in treatment: 8988621 INFO @ Tue, 16 Jun 2020 08:43:44: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:43:44: #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 08:43:44: #1 tags after filtering in treatment: 8988621 INFO @ Tue, 16 Jun 2020 08:43:44: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:43:44: #1 finished! INFO @ Tue, 16 Jun 2020 08:43:44: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:43:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:43:44: #2 number of paired peaks: 90 WARNING @ Tue, 16 Jun 2020 08:43:44: Too few paired peaks (90) 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 08:43:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX4082348/SRX4082348.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。