Job ID = 6528521 SRX = SRX969918 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:14:06 prefetch.2.10.7: 1) Downloading 'SRR1931634'... 2020-06-29T15:14:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:16:37 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:16:38 prefetch.2.10.7: 'SRR1931634' is valid 2020-06-29T15:16:38 prefetch.2.10.7: 1) 'SRR1931634' was downloaded successfully Read 23714187 spots for SRR1931634/SRR1931634.sra Written 23714187 spots for SRR1931634/SRR1931634.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: 00:07:04 23714187 reads; of these: 23714187 (100.00%) were unpaired; of these: 555923 (2.34%) aligned 0 times 17640616 (74.39%) aligned exactly 1 time 5517648 (23.27%) aligned >1 times 97.66% overall alignment rate Time searching: 00:07:04 Overall time: 00:07:04 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_sort_core] merging from 12 files... [bam_rmdupse_core] 6914803 / 23158264 = 0.2986 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 @ Tue, 30 Jun 2020 00:34:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.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 @ Tue, 30 Jun 2020 00:34:00: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:34:00: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:34:05: 1000000 INFO @ Tue, 30 Jun 2020 00:34:11: 2000000 INFO @ Tue, 30 Jun 2020 00:34:16: 3000000 INFO @ Tue, 30 Jun 2020 00:34:21: 4000000 INFO @ Tue, 30 Jun 2020 00:34:27: 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 @ Tue, 30 Jun 2020 00:34:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.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 @ Tue, 30 Jun 2020 00:34:30: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:34:30: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:34:32: 6000000 INFO @ Tue, 30 Jun 2020 00:34:36: 1000000 INFO @ Tue, 30 Jun 2020 00:34:39: 7000000 INFO @ Tue, 30 Jun 2020 00:34:42: 2000000 INFO @ Tue, 30 Jun 2020 00:34:45: 8000000 INFO @ Tue, 30 Jun 2020 00:34:48: 3000000 INFO @ Tue, 30 Jun 2020 00:34:50: 9000000 INFO @ Tue, 30 Jun 2020 00:34:54: 4000000 INFO @ Tue, 30 Jun 2020 00:34:56: 10000000 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 @ Tue, 30 Jun 2020 00:35:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.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 @ Tue, 30 Jun 2020 00:35:00: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:35:00: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:35:00: 5000000 INFO @ Tue, 30 Jun 2020 00:35:03: 11000000 INFO @ Tue, 30 Jun 2020 00:35:06: 1000000 INFO @ Tue, 30 Jun 2020 00:35:06: 6000000 INFO @ Tue, 30 Jun 2020 00:35:09: 12000000 INFO @ Tue, 30 Jun 2020 00:35:12: 2000000 INFO @ Tue, 30 Jun 2020 00:35:13: 7000000 INFO @ Tue, 30 Jun 2020 00:35:15: 13000000 INFO @ Tue, 30 Jun 2020 00:35:18: 3000000 INFO @ Tue, 30 Jun 2020 00:35:19: 8000000 INFO @ Tue, 30 Jun 2020 00:35:21: 14000000 INFO @ Tue, 30 Jun 2020 00:35:24: 4000000 INFO @ Tue, 30 Jun 2020 00:35:25: 9000000 INFO @ Tue, 30 Jun 2020 00:35:28: 15000000 INFO @ Tue, 30 Jun 2020 00:35:31: 5000000 INFO @ Tue, 30 Jun 2020 00:35:32: 10000000 INFO @ Tue, 30 Jun 2020 00:35:34: 16000000 INFO @ Tue, 30 Jun 2020 00:35:36: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:35:36: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:35:36: #1 total tags in treatment: 16243461 INFO @ Tue, 30 Jun 2020 00:35:36: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:35:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:35:36: #1 tags after filtering in treatment: 16243461 INFO @ Tue, 30 Jun 2020 00:35:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:35:36: #1 finished! INFO @ Tue, 30 Jun 2020 00:35:36: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:35:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:35:37: #2 number of paired peaks: 92 WARNING @ Tue, 30 Jun 2020 00:35:37: Too few paired peaks (92) 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 @ Tue, 30 Jun 2020 00:35:37: Process for pairing-model is terminated! INFO @ Tue, 30 Jun 2020 00:35:37: 6000000 cut: /home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.05_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/SRX969918/SRX969918.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:35:38: 11000000 INFO @ Tue, 30 Jun 2020 00:35:44: 7000000 INFO @ Tue, 30 Jun 2020 00:35:44: 12000000 INFO @ Tue, 30 Jun 2020 00:35:50: 8000000 INFO @ Tue, 30 Jun 2020 00:35:51: 13000000 INFO @ Tue, 30 Jun 2020 00:35:56: 9000000 INFO @ Tue, 30 Jun 2020 00:35:57: 14000000 INFO @ Tue, 30 Jun 2020 00:36:02: 10000000 INFO @ Tue, 30 Jun 2020 00:36:04: 15000000 INFO @ Tue, 30 Jun 2020 00:36:09: 11000000 INFO @ Tue, 30 Jun 2020 00:36:10: 16000000 INFO @ Tue, 30 Jun 2020 00:36:11: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:36:11: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:36:11: #1 total tags in treatment: 16243461 INFO @ Tue, 30 Jun 2020 00:36:11: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:36:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:36:12: #1 tags after filtering in treatment: 16243461 INFO @ Tue, 30 Jun 2020 00:36:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:36:12: #1 finished! INFO @ Tue, 30 Jun 2020 00:36:12: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:36:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:36:13: #2 number of paired peaks: 92 WARNING @ Tue, 30 Jun 2020 00:36:13: Too few paired peaks (92) 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 @ Tue, 30 Jun 2020 00:36:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.10_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/SRX969918/SRX969918.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:36:15: 12000000 INFO @ Tue, 30 Jun 2020 00:36:21: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:36:27: 14000000 INFO @ Tue, 30 Jun 2020 00:36:33: 15000000 INFO @ Tue, 30 Jun 2020 00:36:39: 16000000 INFO @ Tue, 30 Jun 2020 00:36:40: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:36:40: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:36:40: #1 total tags in treatment: 16243461 INFO @ Tue, 30 Jun 2020 00:36:40: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:36:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:36:40: #1 tags after filtering in treatment: 16243461 INFO @ Tue, 30 Jun 2020 00:36:40: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:36:40: #1 finished! INFO @ Tue, 30 Jun 2020 00:36:40: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:36:40: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:36:41: #2 number of paired peaks: 92 WARNING @ Tue, 30 Jun 2020 00:36:41: Too few paired peaks (92) 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 @ Tue, 30 Jun 2020 00:36:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.20_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/SRX969918/SRX969918.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX969918/SRX969918.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。