Job ID = 7119677 SRX = SRX8641892 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-22T07:28:26 prefetch.2.10.7: 1) Downloading 'SRR12120425'... 2020-07-22T07:28:26 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:29:59 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:30:00 prefetch.2.10.7: 'SRR12120425' is valid 2020-07-22T07:30:00 prefetch.2.10.7: 1) 'SRR12120425' was downloaded successfully 2020-07-22T07:30:00 prefetch.2.10.7: 'SRR12120425' has 0 unresolved dependencies Read 12059138 spots for SRR12120425/SRR12120425.sra Written 12059138 spots for SRR12120425/SRR12120425.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: 00:03:17 12059138 reads; of these: 12059138 (100.00%) were unpaired; of these: 3554328 (29.47%) aligned 0 times 7699692 (63.85%) aligned exactly 1 time 805118 (6.68%) aligned >1 times 70.53% overall alignment rate Time searching: 00:03:17 Overall time: 00:03:17 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] 4822572 / 8504810 = 0.5670 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 16:36:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.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 16:36:36: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:36:36: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:36:43: 1000000 INFO @ Wed, 22 Jul 2020 16:36:49: 2000000 INFO @ Wed, 22 Jul 2020 16:36:56: 3000000 INFO @ Wed, 22 Jul 2020 16:37:00: #1 tag size is determined as 74 bps INFO @ Wed, 22 Jul 2020 16:37:00: #1 tag size = 74 INFO @ Wed, 22 Jul 2020 16:37:00: #1 total tags in treatment: 3682238 INFO @ Wed, 22 Jul 2020 16:37:00: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:37:00: #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 16:37:00: #1 tags after filtering in treatment: 3682238 INFO @ Wed, 22 Jul 2020 16:37:00: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:37:00: #1 finished! INFO @ Wed, 22 Jul 2020 16:37:00: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:37:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:37:01: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:37:01: 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 16:37:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.05_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/SRX8641892/SRX8641892.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 16:37:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.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 16:37:06: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:37:06: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:37:13: 1000000 INFO @ Wed, 22 Jul 2020 16:37:20: 2000000 INFO @ Wed, 22 Jul 2020 16:37:26: 3000000 INFO @ Wed, 22 Jul 2020 16:37:31: #1 tag size is determined as 74 bps INFO @ Wed, 22 Jul 2020 16:37:31: #1 tag size = 74 INFO @ Wed, 22 Jul 2020 16:37:31: #1 total tags in treatment: 3682238 INFO @ Wed, 22 Jul 2020 16:37:31: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:37:31: #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 16:37:31: #1 tags after filtering in treatment: 3682238 INFO @ Wed, 22 Jul 2020 16:37:31: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:37:31: #1 finished! INFO @ Wed, 22 Jul 2020 16:37:31: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:37:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:37:31: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:37:31: 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 16:37:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.10_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/sacCer3/SRX8641892/SRX8641892.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 16:37:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.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 16:37:36: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:37:36: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:37:43: 1000000 INFO @ Wed, 22 Jul 2020 16:37:49: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:37:56: 3000000 INFO @ Wed, 22 Jul 2020 16:38:01: #1 tag size is determined as 74 bps INFO @ Wed, 22 Jul 2020 16:38:01: #1 tag size = 74 INFO @ Wed, 22 Jul 2020 16:38:01: #1 total tags in treatment: 3682238 INFO @ Wed, 22 Jul 2020 16:38:01: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:38:01: #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 16:38:01: #1 tags after filtering in treatment: 3682238 INFO @ Wed, 22 Jul 2020 16:38:01: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 16:38:01: #1 finished! INFO @ Wed, 22 Jul 2020 16:38:01: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:38:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:38:01: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:38:01: 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 16:38:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.20_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/sacCer3/SRX8641892/SRX8641892.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8641892/SRX8641892.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。