Job ID = 7119621 SRX = SRX8641888 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-22T07:27:48 prefetch.2.10.7: 1) Downloading 'SRR12120421'... 2020-07-22T07:27:48 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:29:04 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:29:05 prefetch.2.10.7: 'SRR12120421' is valid 2020-07-22T07:29:05 prefetch.2.10.7: 1) 'SRR12120421' was downloaded successfully 2020-07-22T07:29:05 prefetch.2.10.7: 'SRR12120421' has 0 unresolved dependencies Read 9009824 spots for SRR12120421/SRR12120421.sra Written 9009824 spots for SRR12120421/SRR12120421.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: 00:02:56 9009824 reads; of these: 9009824 (100.00%) were unpaired; of these: 1517336 (16.84%) aligned 0 times 6382009 (70.83%) aligned exactly 1 time 1110479 (12.33%) aligned >1 times 83.16% overall alignment rate Time searching: 00:02:56 Overall time: 00:02:56 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_rmdupse_core] 3671155 / 7492488 = 0.4900 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 @ Wed, 22 Jul 2020 16:35:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 22 Jul 2020 16:35:26: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:35:26: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:35:35: 1000000 INFO @ Wed, 22 Jul 2020 16:35:43: 2000000 INFO @ Wed, 22 Jul 2020 16:35:51: 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 @ Wed, 22 Jul 2020 16:35:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 22 Jul 2020 16:35:56: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:35:56: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:35:58: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:35:58: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:35:58: #1 total tags in treatment: 3821333 INFO @ Wed, 22 Jul 2020 16:35:58: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:35:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:35:58: #1 tags after filtering in treatment: 3821333 INFO @ Wed, 22 Jul 2020 16:35:58: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:35:58: #1 finished! INFO @ Wed, 22 Jul 2020 16:35:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:35:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:35:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:35:59: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 16:35:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.05_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/sacCer3/SRX8641888/SRX8641888.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:36:05: 1000000 INFO @ Wed, 22 Jul 2020 16:36:13: 2000000 INFO @ Wed, 22 Jul 2020 16:36:21: 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 @ Wed, 22 Jul 2020 16:36:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 22 Jul 2020 16:36:26: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:36:26: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:36:28: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:36:28: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:36:28: #1 total tags in treatment: 3821333 INFO @ Wed, 22 Jul 2020 16:36:28: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:36:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:36:28: #1 tags after filtering in treatment: 3821333 INFO @ Wed, 22 Jul 2020 16:36:28: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:36:28: #1 finished! INFO @ Wed, 22 Jul 2020 16:36:28: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:36:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:36:29: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:36:29: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 16:36:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.10_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/sacCer3/SRX8641888/SRX8641888.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:36:35: 1000000 INFO @ Wed, 22 Jul 2020 16:36:43: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:36:52: 3000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:36:58: #1 tag size is determined as 90 bps INFO @ Wed, 22 Jul 2020 16:36:58: #1 tag size = 90 INFO @ Wed, 22 Jul 2020 16:36:58: #1 total tags in treatment: 3821333 INFO @ Wed, 22 Jul 2020 16:36:58: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:36:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:36:58: #1 tags after filtering in treatment: 3821333 INFO @ Wed, 22 Jul 2020 16:36:58: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:36:58: #1 finished! INFO @ Wed, 22 Jul 2020 16:36:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:36:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:36:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:36:59: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 16:36:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.20_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/sacCer3/SRX8641888/SRX8641888.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641888/SRX8641888.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling