Job ID = 6528078 SRX = SRX4068069 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:22:20 prefetch.2.10.7: 1) Downloading 'SRR7148580'... 2020-06-29T14:22:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:23:50 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:23:51 prefetch.2.10.7: 'SRR7148580' is valid 2020-06-29T14:23:51 prefetch.2.10.7: 1) 'SRR7148580' was downloaded successfully Read 22627156 spots for SRR7148580/SRR7148580.sra Written 22627156 spots for SRR7148580/SRR7148580.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:25 22627156 reads; of these: 22627156 (100.00%) were unpaired; of these: 6069007 (26.82%) aligned 0 times 13057595 (57.71%) aligned exactly 1 time 3500554 (15.47%) aligned >1 times 73.18% overall alignment rate Time searching: 00:04:26 Overall time: 00:04:26 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_sort_core] merging from 8 files... [bam_rmdupse_core] 1906368 / 16558149 = 0.1151 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 23:36:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.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 23:36:30: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:36:30: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:36:35: 1000000 INFO @ Mon, 29 Jun 2020 23:36:40: 2000000 INFO @ Mon, 29 Jun 2020 23:36:46: 3000000 INFO @ Mon, 29 Jun 2020 23:36:51: 4000000 INFO @ Mon, 29 Jun 2020 23:36:56: 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 @ Mon, 29 Jun 2020 23:37:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.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 23:37:00: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:37:00: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:37:02: 6000000 INFO @ Mon, 29 Jun 2020 23:37:06: 1000000 INFO @ Mon, 29 Jun 2020 23:37:08: 7000000 INFO @ Mon, 29 Jun 2020 23:37:12: 2000000 INFO @ Mon, 29 Jun 2020 23:37:14: 8000000 INFO @ Mon, 29 Jun 2020 23:37:18: 3000000 INFO @ Mon, 29 Jun 2020 23:37:21: 9000000 INFO @ Mon, 29 Jun 2020 23:37:25: 4000000 INFO @ Mon, 29 Jun 2020 23:37:27: 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 @ Mon, 29 Jun 2020 23:37:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.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 23:37:30: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:37:30: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:37:31: 5000000 INFO @ Mon, 29 Jun 2020 23:37:33: 11000000 INFO @ Mon, 29 Jun 2020 23:37:36: 1000000 INFO @ Mon, 29 Jun 2020 23:37:37: 6000000 INFO @ Mon, 29 Jun 2020 23:37:39: 12000000 INFO @ Mon, 29 Jun 2020 23:37:42: 2000000 INFO @ Mon, 29 Jun 2020 23:37:43: 7000000 INFO @ Mon, 29 Jun 2020 23:37:45: 13000000 INFO @ Mon, 29 Jun 2020 23:37:48: 3000000 INFO @ Mon, 29 Jun 2020 23:37:49: 8000000 INFO @ Mon, 29 Jun 2020 23:37:51: 14000000 INFO @ Mon, 29 Jun 2020 23:37:54: 4000000 INFO @ Mon, 29 Jun 2020 23:37:55: #1 tag size is determined as 35 bps INFO @ Mon, 29 Jun 2020 23:37:55: #1 tag size = 35 INFO @ Mon, 29 Jun 2020 23:37:55: #1 total tags in treatment: 14651781 INFO @ Mon, 29 Jun 2020 23:37:55: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:37:55: #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 23:37:55: 9000000 INFO @ Mon, 29 Jun 2020 23:37:55: #1 tags after filtering in treatment: 14651781 INFO @ Mon, 29 Jun 2020 23:37:55: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:37:55: #1 finished! INFO @ Mon, 29 Jun 2020 23:37:55: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:37:55: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:37:56: #2 number of paired peaks: 98 WARNING @ Mon, 29 Jun 2020 23:37:56: Too few paired peaks (98) 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 23:37:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.05_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/SRX4068069/SRX4068069.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:38:00: 5000000 INFO @ Mon, 29 Jun 2020 23:38:01: 10000000 INFO @ Mon, 29 Jun 2020 23:38:06: 6000000 INFO @ Mon, 29 Jun 2020 23:38:07: 11000000 INFO @ Mon, 29 Jun 2020 23:38:12: 7000000 INFO @ Mon, 29 Jun 2020 23:38:13: 12000000 INFO @ Mon, 29 Jun 2020 23:38:18: 8000000 INFO @ Mon, 29 Jun 2020 23:38:19: 13000000 INFO @ Mon, 29 Jun 2020 23:38:24: 9000000 INFO @ Mon, 29 Jun 2020 23:38:24: 14000000 INFO @ Mon, 29 Jun 2020 23:38:28: #1 tag size is determined as 35 bps INFO @ Mon, 29 Jun 2020 23:38:28: #1 tag size = 35 INFO @ Mon, 29 Jun 2020 23:38:28: #1 total tags in treatment: 14651781 INFO @ Mon, 29 Jun 2020 23:38:28: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:38:28: #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 23:38:29: #1 tags after filtering in treatment: 14651781 INFO @ Mon, 29 Jun 2020 23:38:29: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:38:29: #1 finished! INFO @ Mon, 29 Jun 2020 23:38:29: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:38:29: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:38:29: #2 number of paired peaks: 98 WARNING @ Mon, 29 Jun 2020 23:38:29: Too few paired peaks (98) 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 23:38:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.10_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/SRX4068069/SRX4068069.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:38:30: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:38:35: 11000000 INFO @ Mon, 29 Jun 2020 23:38:41: 12000000 INFO @ Mon, 29 Jun 2020 23:38:46: 13000000 INFO @ Mon, 29 Jun 2020 23:38:52: 14000000 INFO @ Mon, 29 Jun 2020 23:38:55: #1 tag size is determined as 35 bps INFO @ Mon, 29 Jun 2020 23:38:55: #1 tag size = 35 INFO @ Mon, 29 Jun 2020 23:38:55: #1 total tags in treatment: 14651781 INFO @ Mon, 29 Jun 2020 23:38:55: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:38:55: #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 23:38:56: #1 tags after filtering in treatment: 14651781 INFO @ Mon, 29 Jun 2020 23:38:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:38:56: #1 finished! INFO @ Mon, 29 Jun 2020 23:38:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:38:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:38:56: #2 number of paired peaks: 98 WARNING @ Mon, 29 Jun 2020 23:38:56: Too few paired peaks (98) 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 23:38:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4068069/SRX4068069.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。