Job ID = 6498392 SRX = SRX495227 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T23:25:58 prefetch.2.10.7: 1) Downloading 'SRR1198732'... 2020-06-25T23:25:58 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T23:27:28 prefetch.2.10.7: HTTPS download succeed 2020-06-25T23:27:29 prefetch.2.10.7: 'SRR1198732' is valid 2020-06-25T23:27:29 prefetch.2.10.7: 1) 'SRR1198732' was downloaded successfully Read 15013137 spots for SRR1198732/SRR1198732.sra Written 15013137 spots for SRR1198732/SRR1198732.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:24 15013137 reads; of these: 15013137 (100.00%) were unpaired; of these: 4446366 (29.62%) aligned 0 times 9151743 (60.96%) aligned exactly 1 time 1415028 (9.43%) aligned >1 times 70.38% overall alignment rate Time searching: 00:03:25 Overall time: 00:03:25 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] 1225258 / 10566771 = 0.1160 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 @ Fri, 26 Jun 2020 08:35:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.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 @ Fri, 26 Jun 2020 08:35:00: #1 read tag files... INFO @ Fri, 26 Jun 2020 08:35:00: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 08:35:06: 1000000 INFO @ Fri, 26 Jun 2020 08:35:11: 2000000 INFO @ Fri, 26 Jun 2020 08:35:17: 3000000 INFO @ Fri, 26 Jun 2020 08:35:23: 4000000 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 @ Fri, 26 Jun 2020 08:35:29: 5000000 INFO @ Fri, 26 Jun 2020 08:35:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.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 @ Fri, 26 Jun 2020 08:35:29: #1 read tag files... INFO @ Fri, 26 Jun 2020 08:35:29: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 08:35:35: 6000000 INFO @ Fri, 26 Jun 2020 08:35:35: 1000000 INFO @ Fri, 26 Jun 2020 08:35:41: 7000000 INFO @ Fri, 26 Jun 2020 08:35:41: 2000000 INFO @ Fri, 26 Jun 2020 08:35:47: 8000000 INFO @ Fri, 26 Jun 2020 08:35:47: 3000000 INFO @ Fri, 26 Jun 2020 08:35:53: 9000000 INFO @ Fri, 26 Jun 2020 08:35:53: 4000000 INFO @ Fri, 26 Jun 2020 08:35:55: #1 tag size is determined as 44 bps INFO @ Fri, 26 Jun 2020 08:35:55: #1 tag size = 44 INFO @ Fri, 26 Jun 2020 08:35:55: #1 total tags in treatment: 9341513 INFO @ Fri, 26 Jun 2020 08:35:55: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:35:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 08:35:55: #1 tags after filtering in treatment: 9341513 INFO @ Fri, 26 Jun 2020 08:35:55: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:35:55: #1 finished! INFO @ Fri, 26 Jun 2020 08:35:55: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:35:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:35:56: #2 number of paired peaks: 1 WARNING @ Fri, 26 Jun 2020 08:35:56: Too few paired peaks (1) 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 @ Fri, 26 Jun 2020 08:35:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.05_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/dm3/SRX495227/SRX495227.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.05_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 @ Fri, 26 Jun 2020 08:35:59: 5000000 INFO @ Fri, 26 Jun 2020 08:35:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.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 @ Fri, 26 Jun 2020 08:35:59: #1 read tag files... INFO @ Fri, 26 Jun 2020 08:35:59: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 08:36:05: 1000000 INFO @ Fri, 26 Jun 2020 08:36:05: 6000000 INFO @ Fri, 26 Jun 2020 08:36:11: 2000000 INFO @ Fri, 26 Jun 2020 08:36:11: 7000000 INFO @ Fri, 26 Jun 2020 08:36:17: 3000000 INFO @ Fri, 26 Jun 2020 08:36:17: 8000000 INFO @ Fri, 26 Jun 2020 08:36:23: 4000000 INFO @ Fri, 26 Jun 2020 08:36:24: 9000000 INFO @ Fri, 26 Jun 2020 08:36:26: #1 tag size is determined as 44 bps INFO @ Fri, 26 Jun 2020 08:36:26: #1 tag size = 44 INFO @ Fri, 26 Jun 2020 08:36:26: #1 total tags in treatment: 9341513 INFO @ Fri, 26 Jun 2020 08:36:26: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:36:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 08:36:26: #1 tags after filtering in treatment: 9341513 INFO @ Fri, 26 Jun 2020 08:36:26: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:36:26: #1 finished! INFO @ Fri, 26 Jun 2020 08:36:26: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:36:26: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:36:27: #2 number of paired peaks: 1 WARNING @ Fri, 26 Jun 2020 08:36:27: Too few paired peaks (1) 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 @ Fri, 26 Jun 2020 08:36:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.10_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/SRX495227/SRX495227.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 08:36:29: 5000000 INFO @ Fri, 26 Jun 2020 08:36:35: 6000000 INFO @ Fri, 26 Jun 2020 08:36:40: 7000000 INFO @ Fri, 26 Jun 2020 08:36:46: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 08:36:52: 9000000 INFO @ Fri, 26 Jun 2020 08:36:54: #1 tag size is determined as 44 bps INFO @ Fri, 26 Jun 2020 08:36:54: #1 tag size = 44 INFO @ Fri, 26 Jun 2020 08:36:54: #1 total tags in treatment: 9341513 INFO @ Fri, 26 Jun 2020 08:36:54: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:36:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 08:36:54: #1 tags after filtering in treatment: 9341513 INFO @ Fri, 26 Jun 2020 08:36:54: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:36:54: #1 finished! INFO @ Fri, 26 Jun 2020 08:36:54: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:36:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:36:55: #2 number of paired peaks: 1 WARNING @ Fri, 26 Jun 2020 08:36:55: Too few paired peaks (1) 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 @ Fri, 26 Jun 2020 08:36:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.20_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/SRX495227/SRX495227.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495227/SRX495227.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。