Job ID = 6528264 SRX = SRX495228 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:33:21 prefetch.2.10.7: 1) Downloading 'SRR1198733'... 2020-06-29T14:33:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:34:52 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:34:52 prefetch.2.10.7: 'SRR1198733' is valid 2020-06-29T14:34:52 prefetch.2.10.7: 1) 'SRR1198733' was downloaded successfully Read 7215432 spots for SRR1198733/SRR1198733.sra Written 7215432 spots for SRR1198733/SRR1198733.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: 00:00:58 7215432 reads; of these: 7215432 (100.00%) were unpaired; of these: 4358562 (60.41%) aligned 0 times 2499023 (34.63%) aligned exactly 1 time 357847 (4.96%) aligned >1 times 39.59% overall alignment rate Time searching: 00:00:58 Overall time: 00:00:58 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] 111726 / 2856870 = 0.0391 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 23:38:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.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 23:38:59: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:38:59: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:39:04: 1000000 INFO @ Mon, 29 Jun 2020 23:39:09: 2000000 INFO @ Mon, 29 Jun 2020 23:39:13: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:39:13: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:39:13: #1 total tags in treatment: 2745144 INFO @ Mon, 29 Jun 2020 23:39:13: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:39:13: #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 23:39:13: #1 tags after filtering in treatment: 2745144 INFO @ Mon, 29 Jun 2020 23:39:13: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:39:13: #1 finished! INFO @ Mon, 29 Jun 2020 23:39:13: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:39:13: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:39:13: #2 number of paired peaks: 3 WARNING @ Mon, 29 Jun 2020 23:39:13: Too few paired peaks (3) 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 23:39:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.05_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/SRX495228/SRX495228.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 23:39:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.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 23:39:30: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:39:30: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:39:36: 1000000 INFO @ Mon, 29 Jun 2020 23:39:42: 2000000 INFO @ Mon, 29 Jun 2020 23:39:46: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:39:46: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:39:46: #1 total tags in treatment: 2745144 INFO @ Mon, 29 Jun 2020 23:39:46: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:39:46: #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 23:39:46: #1 tags after filtering in treatment: 2745144 INFO @ Mon, 29 Jun 2020 23:39:46: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:39:46: #1 finished! INFO @ Mon, 29 Jun 2020 23:39:46: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:39:46: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:39:46: #2 number of paired peaks: 3 WARNING @ Mon, 29 Jun 2020 23:39:46: Too few paired peaks (3) 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 23:39:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.10_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/SRX495228/SRX495228.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.10_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 @ Mon, 29 Jun 2020 23:39:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.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 23:39:59: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:39:59: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:40:05: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:40:11: 2000000 INFO @ Mon, 29 Jun 2020 23:40:15: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 23:40:15: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 23:40:15: #1 total tags in treatment: 2745144 INFO @ Mon, 29 Jun 2020 23:40:15: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:40:15: #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 23:40:15: #1 tags after filtering in treatment: 2745144 INFO @ Mon, 29 Jun 2020 23:40:15: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:40:15: #1 finished! INFO @ Mon, 29 Jun 2020 23:40:15: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:40:15: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:40:15: #2 number of paired peaks: 3 WARNING @ Mon, 29 Jun 2020 23:40:15: Too few paired peaks (3) 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 23:40:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.20_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/SRX495228/SRX495228.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495228/SRX495228.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。