Job ID = 6527455 SRX = SRX013052 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:37:37 prefetch.2.10.7: 1) Downloading 'SRR030318'... 2020-06-29T12:37:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:38:33 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:38:33 prefetch.2.10.7: 'SRR030318' is valid 2020-06-29T12:38:33 prefetch.2.10.7: 1) 'SRR030318' was downloaded successfully Read 7822139 spots for SRR030318/SRR030318.sra Written 7822139 spots for SRR030318/SRR030318.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: 00:01:40 7822139 reads; of these: 7822139 (100.00%) were unpaired; of these: 328563 (4.20%) aligned 0 times 6345644 (81.12%) aligned exactly 1 time 1147932 (14.68%) aligned >1 times 95.80% overall alignment rate Time searching: 00:01:40 Overall time: 00:01:40 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] 263614 / 7493576 = 0.0352 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 21:43:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.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 21:43:40: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:43:40: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:43:46: 1000000 INFO @ Mon, 29 Jun 2020 21:43:52: 2000000 INFO @ Mon, 29 Jun 2020 21:43:57: 3000000 INFO @ Mon, 29 Jun 2020 21:44:03: 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 21:44:09: 5000000 INFO @ Mon, 29 Jun 2020 21:44:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.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 21:44:10: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:44:10: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:44:15: 6000000 INFO @ Mon, 29 Jun 2020 21:44:16: 1000000 INFO @ Mon, 29 Jun 2020 21:44:21: 7000000 INFO @ Mon, 29 Jun 2020 21:44:22: 2000000 INFO @ Mon, 29 Jun 2020 21:44:23: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:44:23: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:44:23: #1 total tags in treatment: 7229962 INFO @ Mon, 29 Jun 2020 21:44:23: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:44:23: #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 21:44:23: #1 tags after filtering in treatment: 7229962 INFO @ Mon, 29 Jun 2020 21:44:23: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:44:23: #1 finished! INFO @ Mon, 29 Jun 2020 21:44:23: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:44:23: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:44:23: #2 number of paired peaks: 44 WARNING @ Mon, 29 Jun 2020 21:44:23: Too few paired peaks (44) 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 21:44:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.05_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/SRX013052/SRX013052.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:44:28: 3000000 INFO @ Mon, 29 Jun 2020 21:44:34: 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 21:44:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.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 21:44:40: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:44:40: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:44:40: 5000000 INFO @ Mon, 29 Jun 2020 21:44:46: 1000000 INFO @ Mon, 29 Jun 2020 21:44:46: 6000000 INFO @ Mon, 29 Jun 2020 21:44:53: 2000000 INFO @ Mon, 29 Jun 2020 21:44:53: 7000000 INFO @ Mon, 29 Jun 2020 21:44:54: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:44:54: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:44:54: #1 total tags in treatment: 7229962 INFO @ Mon, 29 Jun 2020 21:44:54: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:44:54: #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 21:44:54: #1 tags after filtering in treatment: 7229962 INFO @ Mon, 29 Jun 2020 21:44:54: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:44:54: #1 finished! INFO @ Mon, 29 Jun 2020 21:44:54: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:44:54: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:44:55: #2 number of paired peaks: 44 WARNING @ Mon, 29 Jun 2020 21:44:55: Too few paired peaks (44) 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 21:44:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.10_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/SRX013052/SRX013052.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:44:59: 3000000 INFO @ Mon, 29 Jun 2020 21:45:05: 4000000 INFO @ Mon, 29 Jun 2020 21:45:10: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:45:16: 6000000 INFO @ Mon, 29 Jun 2020 21:45:23: 7000000 INFO @ Mon, 29 Jun 2020 21:45:24: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:45:24: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:45:24: #1 total tags in treatment: 7229962 INFO @ Mon, 29 Jun 2020 21:45:24: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:45:24: #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 21:45:24: #1 tags after filtering in treatment: 7229962 INFO @ Mon, 29 Jun 2020 21:45:24: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:45:24: #1 finished! INFO @ Mon, 29 Jun 2020 21:45:24: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:45:24: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:45:24: #2 number of paired peaks: 44 WARNING @ Mon, 29 Jun 2020 21:45:24: Too few paired peaks (44) 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 21:45:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.20_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/SRX013052/SRX013052.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013052/SRX013052.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。