Job ID = 6453400 SRX = SRX113328 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:23:17 prefetch.2.10.7: 1) Downloading 'SRR392947'... 2020-06-21T08:23:17 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:27:18 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:27:19 prefetch.2.10.7: 'SRR392947' is valid 2020-06-21T08:27:19 prefetch.2.10.7: 1) 'SRR392947' was downloaded successfully Read 15295295 spots for SRR392947/SRR392947.sra Written 15295295 spots for SRR392947/SRR392947.sra 2020-06-21T08:28:15 prefetch.2.10.7: 1) Downloading 'SRR392948'... 2020-06-21T08:28:15 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:33:05 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:33:05 prefetch.2.10.7: 1) 'SRR392948' was downloaded successfully Read 18088428 spots for SRR392948/SRR392948.sra Written 18088428 spots for SRR392948/SRR392948.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 Error: Read SRR392948.4 HWI-ST665_0127:1:1101:2802:2244 length=45 has more quality values than read characters. terminate called after throwing an instance of 'int' (ERR): bowtie2-align died with signal 6 (ABRT) (core dumped) マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_rmdupse_core] 1534081 / 9615020 = 0.1596 in library ' ' awk: cmd. line:1: (FILENAME=- FNR=1) fatal: division by zero attempted 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 @ Sun, 21 Jun 2020 17:40:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.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 @ Sun, 21 Jun 2020 17:40:35: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:40:35: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:40:41: 1000000 INFO @ Sun, 21 Jun 2020 17:40:46: 2000000 INFO @ Sun, 21 Jun 2020 17:40:52: 3000000 INFO @ Sun, 21 Jun 2020 17:40:57: 4000000 INFO @ Sun, 21 Jun 2020 17:41:03: 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 @ Sun, 21 Jun 2020 17:41:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.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 @ Sun, 21 Jun 2020 17:41:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:41:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:41:09: 6000000 INFO @ Sun, 21 Jun 2020 17:41:12: 1000000 INFO @ Sun, 21 Jun 2020 17:41:15: 7000000 INFO @ Sun, 21 Jun 2020 17:41:18: 2000000 INFO @ Sun, 21 Jun 2020 17:41:21: 8000000 INFO @ Sun, 21 Jun 2020 17:41:22: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 17:41:22: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 17:41:22: #1 total tags in treatment: 8080939 INFO @ Sun, 21 Jun 2020 17:41:22: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:41:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:41:22: #1 tags after filtering in treatment: 8080916 INFO @ Sun, 21 Jun 2020 17:41:22: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:41:22: #1 finished! INFO @ Sun, 21 Jun 2020 17:41:22: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:41:22: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:41:23: #2 number of paired peaks: 94 WARNING @ Sun, 21 Jun 2020 17:41:23: Too few paired peaks (94) 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 @ Sun, 21 Jun 2020 17:41:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.05_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/dm6/SRX113328/SRX113328.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:41:24: 3000000 INFO @ Sun, 21 Jun 2020 17:41:29: 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 @ Sun, 21 Jun 2020 17:41:35: 5000000 INFO @ Sun, 21 Jun 2020 17:41:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.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 @ Sun, 21 Jun 2020 17:41:35: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:41:35: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:41:41: 6000000 INFO @ Sun, 21 Jun 2020 17:41:41: 1000000 INFO @ Sun, 21 Jun 2020 17:41:47: 2000000 INFO @ Sun, 21 Jun 2020 17:41:47: 7000000 INFO @ Sun, 21 Jun 2020 17:41:53: 3000000 INFO @ Sun, 21 Jun 2020 17:41:53: 8000000 INFO @ Sun, 21 Jun 2020 17:41:54: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 17:41:54: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 17:41:54: #1 total tags in treatment: 8080939 INFO @ Sun, 21 Jun 2020 17:41:54: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:41:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:41:54: #1 tags after filtering in treatment: 8080916 INFO @ Sun, 21 Jun 2020 17:41:54: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:41:54: #1 finished! INFO @ Sun, 21 Jun 2020 17:41:54: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:41:54: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:41:55: #2 number of paired peaks: 94 WARNING @ Sun, 21 Jun 2020 17:41:55: Too few paired peaks (94) 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 @ Sun, 21 Jun 2020 17:41:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.10_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/dm6/SRX113328/SRX113328.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:41:59: 4000000 INFO @ Sun, 21 Jun 2020 17:42:04: 5000000 INFO @ Sun, 21 Jun 2020 17:42:10: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:42:16: 7000000 INFO @ Sun, 21 Jun 2020 17:42:21: 8000000 INFO @ Sun, 21 Jun 2020 17:42:22: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 17:42:22: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 17:42:22: #1 total tags in treatment: 8080939 INFO @ Sun, 21 Jun 2020 17:42:22: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:42:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:42:22: #1 tags after filtering in treatment: 8080916 INFO @ Sun, 21 Jun 2020 17:42:22: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:42:22: #1 finished! INFO @ Sun, 21 Jun 2020 17:42:22: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:42:22: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:42:23: #2 number of paired peaks: 94 WARNING @ Sun, 21 Jun 2020 17:42:23: Too few paired peaks (94) 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 @ Sun, 21 Jun 2020 17:42:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.20_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/dm6/SRX113328/SRX113328.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX113328/SRX113328.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。