Job ID = 6527753 SRX = SRX2618512 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:32:22 prefetch.2.10.7: 1) Downloading 'SRR5319066'... 2020-06-29T13:32:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:33:58 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:33:59 prefetch.2.10.7: 'SRR5319066' is valid 2020-06-29T13:33:59 prefetch.2.10.7: 1) 'SRR5319066' was downloaded successfully 2020-06-29T13:33:59 prefetch.2.10.7: 'SRR5319066' has 0 unresolved dependencies Read 22899448 spots for SRR5319066/SRR5319066.sra Written 22899448 spots for SRR5319066/SRR5319066.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: 00:04:49 22899448 reads; of these: 22899448 (100.00%) were unpaired; of these: 7449862 (32.53%) aligned 0 times 13889206 (60.65%) aligned exactly 1 time 1560380 (6.81%) aligned >1 times 67.47% overall alignment rate Time searching: 00:04:49 Overall time: 00:04:49 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 1357355 / 15449586 = 0.0879 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 @ Mon, 29 Jun 2020 22:52:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:52:06: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:52:06: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:52:14: 1000000 INFO @ Mon, 29 Jun 2020 22:52:21: 2000000 INFO @ Mon, 29 Jun 2020 22:52:29: 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 @ Mon, 29 Jun 2020 22:52:36: 4000000 INFO @ Mon, 29 Jun 2020 22:52:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:52:36: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:52:36: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:52:43: 5000000 INFO @ Mon, 29 Jun 2020 22:52:44: 1000000 INFO @ Mon, 29 Jun 2020 22:52:51: 6000000 INFO @ Mon, 29 Jun 2020 22:52:51: 2000000 INFO @ Mon, 29 Jun 2020 22:52:58: 7000000 INFO @ Mon, 29 Jun 2020 22:52:59: 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 @ Mon, 29 Jun 2020 22:53:06: 8000000 INFO @ Mon, 29 Jun 2020 22:53:06: 4000000 INFO @ Mon, 29 Jun 2020 22:53:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:53:06: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:53:06: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:53:12: 1000000 INFO @ Mon, 29 Jun 2020 22:53:13: 9000000 INFO @ Mon, 29 Jun 2020 22:53:13: 5000000 INFO @ Mon, 29 Jun 2020 22:53:19: 2000000 INFO @ Mon, 29 Jun 2020 22:53:20: 10000000 INFO @ Mon, 29 Jun 2020 22:53:21: 6000000 INFO @ Mon, 29 Jun 2020 22:53:25: 3000000 INFO @ Mon, 29 Jun 2020 22:53:28: 11000000 INFO @ Mon, 29 Jun 2020 22:53:28: 7000000 INFO @ Mon, 29 Jun 2020 22:53:32: 4000000 INFO @ Mon, 29 Jun 2020 22:53:35: 12000000 INFO @ Mon, 29 Jun 2020 22:53:35: 8000000 INFO @ Mon, 29 Jun 2020 22:53:38: 5000000 INFO @ Mon, 29 Jun 2020 22:53:43: 13000000 INFO @ Mon, 29 Jun 2020 22:53:43: 9000000 INFO @ Mon, 29 Jun 2020 22:53:44: 6000000 INFO @ Mon, 29 Jun 2020 22:53:50: 7000000 INFO @ Mon, 29 Jun 2020 22:53:50: 14000000 INFO @ Mon, 29 Jun 2020 22:53:50: 10000000 INFO @ Mon, 29 Jun 2020 22:53:51: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:53:51: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:53:51: #1 total tags in treatment: 14092231 INFO @ Mon, 29 Jun 2020 22:53:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:53:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:53:51: #1 tags after filtering in treatment: 14092231 INFO @ Mon, 29 Jun 2020 22:53:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:53:51: #1 finished! INFO @ Mon, 29 Jun 2020 22:53:51: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:53:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:53:52: #2 number of paired peaks: 30 WARNING @ Mon, 29 Jun 2020 22:53:52: Too few paired peaks (30) 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 @ Mon, 29 Jun 2020 22:53:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.05_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/dm3/SRX2618512/SRX2618512.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:53:56: 8000000 INFO @ Mon, 29 Jun 2020 22:53:58: 11000000 INFO @ Mon, 29 Jun 2020 22:54:01: 9000000 INFO @ Mon, 29 Jun 2020 22:54:05: 12000000 INFO @ Mon, 29 Jun 2020 22:54:07: 10000000 INFO @ Mon, 29 Jun 2020 22:54:12: 13000000 INFO @ Mon, 29 Jun 2020 22:54:13: 11000000 INFO @ Mon, 29 Jun 2020 22:54:19: 14000000 INFO @ Mon, 29 Jun 2020 22:54:19: 12000000 INFO @ Mon, 29 Jun 2020 22:54:20: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:54:20: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:54:20: #1 total tags in treatment: 14092231 INFO @ Mon, 29 Jun 2020 22:54:20: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:54:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:54:20: #1 tags after filtering in treatment: 14092231 INFO @ Mon, 29 Jun 2020 22:54:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:54:20: #1 finished! INFO @ Mon, 29 Jun 2020 22:54:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:54:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:54:21: #2 number of paired peaks: 30 WARNING @ Mon, 29 Jun 2020 22:54:21: Too few paired peaks (30) 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 @ Mon, 29 Jun 2020 22:54:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.10_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/dm3/SRX2618512/SRX2618512.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:54:25: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:54:31: 14000000 INFO @ Mon, 29 Jun 2020 22:54:32: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:54:32: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:54:32: #1 total tags in treatment: 14092231 INFO @ Mon, 29 Jun 2020 22:54:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:54:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:54:32: #1 tags after filtering in treatment: 14092231 INFO @ Mon, 29 Jun 2020 22:54:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:54:32: #1 finished! INFO @ Mon, 29 Jun 2020 22:54:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:54:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:54:33: #2 number of paired peaks: 30 WARNING @ Mon, 29 Jun 2020 22:54:33: Too few paired peaks (30) 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 @ Mon, 29 Jun 2020 22:54:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.20_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/dm3/SRX2618512/SRX2618512.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618512/SRX2618512.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。