Job ID = 7115587 SRX = SRX8539205 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-22T06:10:40 prefetch.2.10.7: 1) Downloading 'SRR12006028'... 2020-07-22T06:10:40 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:12:22 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:12:23 prefetch.2.10.7: 'SRR12006028' is valid 2020-07-22T06:12:23 prefetch.2.10.7: 1) 'SRR12006028' was downloaded successfully Read 15020798 spots for SRR12006028/SRR12006028.sra Written 15020798 spots for SRR12006028/SRR12006028.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: 00:01:41 15020798 reads; of these: 15020798 (100.00%) were unpaired; of these: 2195550 (14.62%) aligned 0 times 10834631 (72.13%) aligned exactly 1 time 1990617 (13.25%) aligned >1 times 85.38% overall alignment rate Time searching: 00:01:41 Overall time: 00:01:41 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_sort_core] merging from 8 files... [bam_rmdupse_core] 3988355 / 12825248 = 0.3110 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 15:17:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.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 15:17:47: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:17:47: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:17:52: 1000000 INFO @ Wed, 22 Jul 2020 15:17:57: 2000000 INFO @ Wed, 22 Jul 2020 15:18:01: 3000000 INFO @ Wed, 22 Jul 2020 15:18:06: 4000000 INFO @ Wed, 22 Jul 2020 15:18:11: 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 @ Wed, 22 Jul 2020 15:18:15: 6000000 INFO @ Wed, 22 Jul 2020 15:18:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.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 15:18:17: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:18:17: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:18:20: 7000000 INFO @ Wed, 22 Jul 2020 15:18:22: 1000000 INFO @ Wed, 22 Jul 2020 15:18:25: 8000000 INFO @ Wed, 22 Jul 2020 15:18:27: 2000000 INFO @ Wed, 22 Jul 2020 15:18:29: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:18:29: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:18:29: #1 total tags in treatment: 8836893 INFO @ Wed, 22 Jul 2020 15:18:29: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:18:29: #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 15:18:29: #1 tags after filtering in treatment: 8836893 INFO @ Wed, 22 Jul 2020 15:18:29: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:18:29: #1 finished! INFO @ Wed, 22 Jul 2020 15:18:29: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:18:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:18:30: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:18:30: 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 15:18:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.05_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/SRX8539205/SRX8539205.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:18:32: 3000000 INFO @ Wed, 22 Jul 2020 15:18:36: 4000000 INFO @ Wed, 22 Jul 2020 15:18:41: 5000000 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 15:18:46: 6000000 INFO @ Wed, 22 Jul 2020 15:18:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.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 15:18:47: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:18:47: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:18:51: 7000000 INFO @ Wed, 22 Jul 2020 15:18:52: 1000000 INFO @ Wed, 22 Jul 2020 15:18:55: 8000000 INFO @ Wed, 22 Jul 2020 15:18:57: 2000000 INFO @ Wed, 22 Jul 2020 15:19:00: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:19:00: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:19:00: #1 total tags in treatment: 8836893 INFO @ Wed, 22 Jul 2020 15:19:00: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:19:00: #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 15:19:00: #1 tags after filtering in treatment: 8836893 INFO @ Wed, 22 Jul 2020 15:19:00: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:19:00: #1 finished! INFO @ Wed, 22 Jul 2020 15:19:00: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:19:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:19:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:19:00: 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 15:19:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.10_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/SRX8539205/SRX8539205.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:19:02: 3000000 INFO @ Wed, 22 Jul 2020 15:19:06: 4000000 INFO @ Wed, 22 Jul 2020 15:19:11: 5000000 INFO @ Wed, 22 Jul 2020 15:19:16: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:19:21: 7000000 INFO @ Wed, 22 Jul 2020 15:19:25: 8000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:19:30: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:19:30: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:19:30: #1 total tags in treatment: 8836893 INFO @ Wed, 22 Jul 2020 15:19:30: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:19:30: #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 15:19:30: #1 tags after filtering in treatment: 8836893 INFO @ Wed, 22 Jul 2020 15:19:30: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Jul 2020 15:19:30: #1 finished! INFO @ Wed, 22 Jul 2020 15:19:30: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:19:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:19:30: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:19:30: 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 15:19:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.20_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/sacCer3/SRX8539205/SRX8539205.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8539205/SRX8539205.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling