Job ID = 6528288 SRX = SRX5243667 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:56:14 prefetch.2.10.7: 1) Downloading 'SRR8436124'... 2020-06-29T14:56:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:57:45 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:57:46 prefetch.2.10.7: 'SRR8436124' is valid 2020-06-29T14:57:46 prefetch.2.10.7: 1) 'SRR8436124' was downloaded successfully Read 10049435 spots for SRR8436124/SRR8436124.sra Written 10049435 spots for SRR8436124/SRR8436124.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: 00:02:52 10049435 reads; of these: 10049435 (100.00%) were unpaired; of these: 630434 (6.27%) aligned 0 times 7282158 (72.46%) aligned exactly 1 time 2136843 (21.26%) aligned >1 times 93.73% overall alignment rate Time searching: 00:02:52 Overall time: 00:02:52 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_rmdupse_core] 1706014 / 9419001 = 0.1811 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, 30 Jun 2020 00:06:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.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 @ Tue, 30 Jun 2020 00:06:12: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:06:12: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:06:18: 1000000 INFO @ Tue, 30 Jun 2020 00:06:23: 2000000 INFO @ Tue, 30 Jun 2020 00:06:28: 3000000 INFO @ Tue, 30 Jun 2020 00:06:34: 4000000 INFO @ Tue, 30 Jun 2020 00:06:39: 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, 30 Jun 2020 00:06:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.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 @ Tue, 30 Jun 2020 00:06:42: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:06:42: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:06:45: 6000000 INFO @ Tue, 30 Jun 2020 00:06:49: 1000000 INFO @ Tue, 30 Jun 2020 00:06:51: 7000000 INFO @ Tue, 30 Jun 2020 00:06:55: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:06:55: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:06:55: #1 total tags in treatment: 7712987 INFO @ Tue, 30 Jun 2020 00:06:55: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:06:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:06:55: #1 tags after filtering in treatment: 7712987 INFO @ Tue, 30 Jun 2020 00:06:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:06:55: #1 finished! INFO @ Tue, 30 Jun 2020 00:06:55: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:06:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:06:56: 2000000 INFO @ Tue, 30 Jun 2020 00:06:56: #2 number of paired peaks: 39 WARNING @ Tue, 30 Jun 2020 00:06:56: Too few paired peaks (39) 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, 30 Jun 2020 00:06:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.05_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/SRX5243667/SRX5243667.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:07:02: 3000000 INFO @ Tue, 30 Jun 2020 00:07:08: 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, 30 Jun 2020 00:07:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.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 @ Tue, 30 Jun 2020 00:07:12: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:07:12: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:07:15: 5000000 INFO @ Tue, 30 Jun 2020 00:07:18: 1000000 INFO @ Tue, 30 Jun 2020 00:07:21: 6000000 INFO @ Tue, 30 Jun 2020 00:07:25: 2000000 INFO @ Tue, 30 Jun 2020 00:07:28: 7000000 INFO @ Tue, 30 Jun 2020 00:07:31: 3000000 INFO @ Tue, 30 Jun 2020 00:07:32: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:07:32: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:07:32: #1 total tags in treatment: 7712987 INFO @ Tue, 30 Jun 2020 00:07:32: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:07:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:07:33: #1 tags after filtering in treatment: 7712987 INFO @ Tue, 30 Jun 2020 00:07:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:07:33: #1 finished! INFO @ Tue, 30 Jun 2020 00:07:33: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:07:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:07:33: #2 number of paired peaks: 39 WARNING @ Tue, 30 Jun 2020 00:07:33: Too few paired peaks (39) 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, 30 Jun 2020 00:07:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:07:36: 4000000 INFO @ Tue, 30 Jun 2020 00:07:42: 5000000 INFO @ Tue, 30 Jun 2020 00:07:47: 6000000 INFO @ Tue, 30 Jun 2020 00:07:53: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:07:57: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:07:57: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:07:57: #1 total tags in treatment: 7712987 INFO @ Tue, 30 Jun 2020 00:07:57: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:07:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:07:57: #1 tags after filtering in treatment: 7712987 INFO @ Tue, 30 Jun 2020 00:07:57: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:07:57: #1 finished! INFO @ Tue, 30 Jun 2020 00:07:57: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:07:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:07:57: #2 number of paired peaks: 39 WARNING @ Tue, 30 Jun 2020 00:07:57: Too few paired peaks (39) 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, 30 Jun 2020 00:07:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.20_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/SRX5243667/SRX5243667.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243667/SRX5243667.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。