Job ID = 6528303 SRX = SRX5343096 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:01:43 prefetch.2.10.7: 1) Downloading 'SRR8540873'... 2020-06-29T15:01:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:05:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:05:22 prefetch.2.10.7: 1) 'SRR8540873' was downloaded successfully 2020-06-29T15:05:22 prefetch.2.10.7: 'SRR8540873' has 0 unresolved dependencies Read 23398256 spots for SRR8540873/SRR8540873.sra Written 23398256 spots for SRR8540873/SRR8540873.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: 00:07:39 23398256 reads; of these: 23398256 (100.00%) were unpaired; of these: 855924 (3.66%) aligned 0 times 18716133 (79.99%) aligned exactly 1 time 3826199 (16.35%) aligned >1 times 96.34% overall alignment rate Time searching: 00:07:39 Overall time: 00:07:39 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] 2380070 / 22542332 = 0.1056 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 00:30:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.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 00:30:25: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:30:25: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:30:33: 1000000 INFO @ Tue, 30 Jun 2020 00:30:41: 2000000 INFO @ Tue, 30 Jun 2020 00:30:49: 3000000 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 00:30:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.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 00:30:55: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:30:55: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:30:56: 4000000 INFO @ Tue, 30 Jun 2020 00:31:04: 1000000 INFO @ Tue, 30 Jun 2020 00:31:05: 5000000 INFO @ Tue, 30 Jun 2020 00:31:13: 2000000 INFO @ Tue, 30 Jun 2020 00:31:14: 6000000 INFO @ Tue, 30 Jun 2020 00:31:21: 3000000 INFO @ Tue, 30 Jun 2020 00:31:22: 7000000 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 00:31:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.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 00:31:25: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:31:25: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:31:30: 4000000 INFO @ Tue, 30 Jun 2020 00:31:31: 8000000 INFO @ Tue, 30 Jun 2020 00:31:33: 1000000 INFO @ Tue, 30 Jun 2020 00:31:39: 5000000 INFO @ Tue, 30 Jun 2020 00:31:40: 9000000 INFO @ Tue, 30 Jun 2020 00:31:41: 2000000 INFO @ Tue, 30 Jun 2020 00:31:47: 6000000 INFO @ Tue, 30 Jun 2020 00:31:49: 10000000 INFO @ Tue, 30 Jun 2020 00:31:50: 3000000 INFO @ Tue, 30 Jun 2020 00:31:56: 7000000 INFO @ Tue, 30 Jun 2020 00:31:58: 11000000 INFO @ Tue, 30 Jun 2020 00:31:58: 4000000 INFO @ Tue, 30 Jun 2020 00:32:05: 8000000 INFO @ Tue, 30 Jun 2020 00:32:06: 5000000 INFO @ Tue, 30 Jun 2020 00:32:07: 12000000 INFO @ Tue, 30 Jun 2020 00:32:14: 9000000 INFO @ Tue, 30 Jun 2020 00:32:14: 6000000 INFO @ Tue, 30 Jun 2020 00:32:15: 13000000 INFO @ Tue, 30 Jun 2020 00:32:23: 7000000 INFO @ Tue, 30 Jun 2020 00:32:23: 10000000 INFO @ Tue, 30 Jun 2020 00:32:24: 14000000 INFO @ Tue, 30 Jun 2020 00:32:31: 8000000 INFO @ Tue, 30 Jun 2020 00:32:32: 11000000 INFO @ Tue, 30 Jun 2020 00:32:33: 15000000 INFO @ Tue, 30 Jun 2020 00:32:40: 9000000 INFO @ Tue, 30 Jun 2020 00:32:41: 12000000 INFO @ Tue, 30 Jun 2020 00:32:42: 16000000 INFO @ Tue, 30 Jun 2020 00:32:48: 10000000 INFO @ Tue, 30 Jun 2020 00:32:50: 13000000 INFO @ Tue, 30 Jun 2020 00:32:51: 17000000 INFO @ Tue, 30 Jun 2020 00:32:57: 11000000 INFO @ Tue, 30 Jun 2020 00:32:59: 14000000 INFO @ Tue, 30 Jun 2020 00:33:00: 18000000 INFO @ Tue, 30 Jun 2020 00:33:05: 12000000 INFO @ Tue, 30 Jun 2020 00:33:08: 15000000 INFO @ Tue, 30 Jun 2020 00:33:09: 19000000 INFO @ Tue, 30 Jun 2020 00:33:13: 13000000 INFO @ Tue, 30 Jun 2020 00:33:17: 16000000 INFO @ Tue, 30 Jun 2020 00:33:18: 20000000 INFO @ Tue, 30 Jun 2020 00:33:19: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:33:19: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:33:19: #1 total tags in treatment: 20162262 INFO @ Tue, 30 Jun 2020 00:33:19: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:33:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:33:20: #1 tags after filtering in treatment: 20162262 INFO @ Tue, 30 Jun 2020 00:33:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:33:20: #1 finished! INFO @ Tue, 30 Jun 2020 00:33:20: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:33:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:33:21: #2 number of paired peaks: 41 WARNING @ Tue, 30 Jun 2020 00:33:21: Too few paired peaks (41) 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 00:33:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.05_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/SRX5343096/SRX5343096.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:33:21: 14000000 INFO @ Tue, 30 Jun 2020 00:33:27: 17000000 INFO @ Tue, 30 Jun 2020 00:33:29: 15000000 INFO @ Tue, 30 Jun 2020 00:33:36: 18000000 INFO @ Tue, 30 Jun 2020 00:33:37: 16000000 INFO @ Tue, 30 Jun 2020 00:33:44: 19000000 INFO @ Tue, 30 Jun 2020 00:33:46: 17000000 INFO @ Tue, 30 Jun 2020 00:33:53: 20000000 INFO @ Tue, 30 Jun 2020 00:33:54: 18000000 INFO @ Tue, 30 Jun 2020 00:33:55: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:33:55: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:33:55: #1 total tags in treatment: 20162262 INFO @ Tue, 30 Jun 2020 00:33:55: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:33:55: #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 00:33:55: #1 tags after filtering in treatment: 20162262 INFO @ Tue, 30 Jun 2020 00:33:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:33:55: #1 finished! INFO @ Tue, 30 Jun 2020 00:33:55: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:33:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:33:56: #2 number of paired peaks: 41 WARNING @ Tue, 30 Jun 2020 00:33:56: Too few paired peaks (41) 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 00:33:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.10_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/SRX5343096/SRX5343096.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:34:01: 19000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:34:08: 20000000 INFO @ Tue, 30 Jun 2020 00:34:09: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:34:09: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:34:09: #1 total tags in treatment: 20162262 INFO @ Tue, 30 Jun 2020 00:34:09: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:34:09: #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 00:34:10: #1 tags after filtering in treatment: 20162262 INFO @ Tue, 30 Jun 2020 00:34:10: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:34:10: #1 finished! INFO @ Tue, 30 Jun 2020 00:34:10: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:34:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:34:11: #2 number of paired peaks: 41 WARNING @ Tue, 30 Jun 2020 00:34:11: Too few paired peaks (41) 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 00:34:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.20_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/SRX5343096/SRX5343096.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343096/SRX5343096.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling