Job ID = 6527948 SRX = SRX335513 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:09:05 prefetch.2.10.7: 1) Downloading 'SRR952855'... 2020-06-29T14:09:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:10:32 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:10:33 prefetch.2.10.7: 'SRR952855' is valid 2020-06-29T14:10:33 prefetch.2.10.7: 1) 'SRR952855' was downloaded successfully Read 8963735 spots for SRR952855/SRR952855.sra Written 8963735 spots for SRR952855/SRR952855.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: 00:02:26 8963735 reads; of these: 8963735 (100.00%) were unpaired; of these: 534476 (5.96%) aligned 0 times 7057219 (78.73%) aligned exactly 1 time 1372040 (15.31%) aligned >1 times 94.04% overall alignment rate Time searching: 00:02:26 Overall time: 00:02:26 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] 966849 / 8429259 = 0.1147 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 23:18:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.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 23:18:20: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:18:20: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:18:25: 1000000 INFO @ Mon, 29 Jun 2020 23:18:31: 2000000 INFO @ Mon, 29 Jun 2020 23:18:37: 3000000 INFO @ Mon, 29 Jun 2020 23:18:43: 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 @ Mon, 29 Jun 2020 23:18:48: 5000000 INFO @ Mon, 29 Jun 2020 23:18:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.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 23:18:50: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:18:50: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:18:54: 6000000 INFO @ Mon, 29 Jun 2020 23:18:56: 1000000 INFO @ Mon, 29 Jun 2020 23:19:01: 7000000 INFO @ Mon, 29 Jun 2020 23:19:02: 2000000 INFO @ Mon, 29 Jun 2020 23:19:03: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:19:03: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:19:03: #1 total tags in treatment: 7462410 INFO @ Mon, 29 Jun 2020 23:19:03: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:19:03: #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 23:19:04: #1 tags after filtering in treatment: 7462410 INFO @ Mon, 29 Jun 2020 23:19:04: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:19:04: #1 finished! INFO @ Mon, 29 Jun 2020 23:19:04: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:19:04: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:19:04: #2 number of paired peaks: 67 WARNING @ Mon, 29 Jun 2020 23:19:04: Too few paired peaks (67) 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 23:19:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.05_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/SRX335513/SRX335513.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:19:08: 3000000 INFO @ Mon, 29 Jun 2020 23:19:14: 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 @ Mon, 29 Jun 2020 23:19:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.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 23:19:20: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:19:20: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:19:20: 5000000 INFO @ Mon, 29 Jun 2020 23:19:26: 6000000 INFO @ Mon, 29 Jun 2020 23:19:26: 1000000 INFO @ Mon, 29 Jun 2020 23:19:32: 7000000 INFO @ Mon, 29 Jun 2020 23:19:32: 2000000 INFO @ Mon, 29 Jun 2020 23:19:35: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:19:35: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:19:35: #1 total tags in treatment: 7462410 INFO @ Mon, 29 Jun 2020 23:19:35: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:19:35: #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 23:19:35: #1 tags after filtering in treatment: 7462410 INFO @ Mon, 29 Jun 2020 23:19:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:19:35: #1 finished! INFO @ Mon, 29 Jun 2020 23:19:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:19:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:19:35: #2 number of paired peaks: 67 WARNING @ Mon, 29 Jun 2020 23:19:35: Too few paired peaks (67) 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 23:19:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.10_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/SRX335513/SRX335513.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:19:38: 3000000 INFO @ Mon, 29 Jun 2020 23:19:44: 4000000 INFO @ Mon, 29 Jun 2020 23:19:50: 5000000 INFO @ Mon, 29 Jun 2020 23:19:55: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:20:01: 7000000 INFO @ Mon, 29 Jun 2020 23:20:04: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:20:04: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:20:04: #1 total tags in treatment: 7462410 INFO @ Mon, 29 Jun 2020 23:20:04: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:20:04: #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 23:20:04: #1 tags after filtering in treatment: 7462410 INFO @ Mon, 29 Jun 2020 23:20:04: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:20:04: #1 finished! INFO @ Mon, 29 Jun 2020 23:20:04: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:20:04: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:20:04: #2 number of paired peaks: 67 WARNING @ Mon, 29 Jun 2020 23:20:04: Too few paired peaks (67) 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 23:20:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.20_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/dm3/SRX335513/SRX335513.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335513/SRX335513.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。