Job ID = 6527729 SRX = SRX2564144 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:21:04 prefetch.2.10.7: 1) Downloading 'SRR5259263'... 2020-06-29T13:21:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:25:40 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:25:40 prefetch.2.10.7: 1) 'SRR5259263' was downloaded successfully 2020-06-29T13:25:40 prefetch.2.10.7: 'SRR5259263' has 0 unresolved dependencies Read 38847845 spots for SRR5259263/SRR5259263.sra Written 38847845 spots for SRR5259263/SRR5259263.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: 00:16:29 38847845 reads; of these: 38847845 (100.00%) were unpaired; of these: 1783000 (4.59%) aligned 0 times 28769439 (74.06%) aligned exactly 1 time 8295406 (21.35%) aligned >1 times 95.41% overall alignment rate Time searching: 00:16:29 Overall time: 00:16:29 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 16 files... [bam_rmdupse_core] 4965662 / 37064845 = 0.1340 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 23:06:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.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 23:06:35: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:06:35: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:06:41: 1000000 INFO @ Mon, 29 Jun 2020 23:06:46: 2000000 INFO @ Mon, 29 Jun 2020 23:06:51: 3000000 INFO @ Mon, 29 Jun 2020 23:06:57: 4000000 INFO @ Mon, 29 Jun 2020 23:07:02: 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 23:07:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.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 23:07:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:07:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:07:08: 6000000 INFO @ Mon, 29 Jun 2020 23:07:11: 1000000 INFO @ Mon, 29 Jun 2020 23:07:13: 7000000 INFO @ Mon, 29 Jun 2020 23:07:17: 2000000 INFO @ Mon, 29 Jun 2020 23:07:19: 8000000 INFO @ Mon, 29 Jun 2020 23:07:22: 3000000 INFO @ Mon, 29 Jun 2020 23:07:24: 9000000 INFO @ Mon, 29 Jun 2020 23:07:28: 4000000 INFO @ Mon, 29 Jun 2020 23:07:30: 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 23:07:34: 5000000 INFO @ Mon, 29 Jun 2020 23:07:35: 11000000 INFO @ Mon, 29 Jun 2020 23:07:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.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 23:07:35: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:07:35: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:07:40: 6000000 INFO @ Mon, 29 Jun 2020 23:07:41: 12000000 INFO @ Mon, 29 Jun 2020 23:07:41: 1000000 INFO @ Mon, 29 Jun 2020 23:07:45: 7000000 INFO @ Mon, 29 Jun 2020 23:07:46: 13000000 INFO @ Mon, 29 Jun 2020 23:07:47: 2000000 INFO @ Mon, 29 Jun 2020 23:07:51: 8000000 INFO @ Mon, 29 Jun 2020 23:07:52: 14000000 INFO @ Mon, 29 Jun 2020 23:07:53: 3000000 INFO @ Mon, 29 Jun 2020 23:07:57: 9000000 INFO @ Mon, 29 Jun 2020 23:07:58: 15000000 INFO @ Mon, 29 Jun 2020 23:07:59: 4000000 INFO @ Mon, 29 Jun 2020 23:08:02: 10000000 INFO @ Mon, 29 Jun 2020 23:08:03: 16000000 INFO @ Mon, 29 Jun 2020 23:08:05: 5000000 INFO @ Mon, 29 Jun 2020 23:08:08: 11000000 INFO @ Mon, 29 Jun 2020 23:08:09: 17000000 INFO @ Mon, 29 Jun 2020 23:08:10: 6000000 INFO @ Mon, 29 Jun 2020 23:08:13: 12000000 INFO @ Mon, 29 Jun 2020 23:08:14: 18000000 INFO @ Mon, 29 Jun 2020 23:08:16: 7000000 INFO @ Mon, 29 Jun 2020 23:08:19: 13000000 INFO @ Mon, 29 Jun 2020 23:08:20: 19000000 INFO @ Mon, 29 Jun 2020 23:08:22: 8000000 INFO @ Mon, 29 Jun 2020 23:08:25: 14000000 INFO @ Mon, 29 Jun 2020 23:08:26: 20000000 INFO @ Mon, 29 Jun 2020 23:08:28: 9000000 INFO @ Mon, 29 Jun 2020 23:08:30: 15000000 INFO @ Mon, 29 Jun 2020 23:08:32: 21000000 INFO @ Mon, 29 Jun 2020 23:08:33: 10000000 INFO @ Mon, 29 Jun 2020 23:08:36: 16000000 INFO @ Mon, 29 Jun 2020 23:08:38: 22000000 INFO @ Mon, 29 Jun 2020 23:08:39: 11000000 INFO @ Mon, 29 Jun 2020 23:08:41: 17000000 INFO @ Mon, 29 Jun 2020 23:08:43: 23000000 INFO @ Mon, 29 Jun 2020 23:08:44: 12000000 INFO @ Mon, 29 Jun 2020 23:08:47: 18000000 INFO @ Mon, 29 Jun 2020 23:08:49: 24000000 INFO @ Mon, 29 Jun 2020 23:08:50: 13000000 INFO @ Mon, 29 Jun 2020 23:08:53: 19000000 INFO @ Mon, 29 Jun 2020 23:08:55: 25000000 INFO @ Mon, 29 Jun 2020 23:08:56: 14000000 INFO @ Mon, 29 Jun 2020 23:08:59: 20000000 INFO @ Mon, 29 Jun 2020 23:09:00: 26000000 INFO @ Mon, 29 Jun 2020 23:09:01: 15000000 INFO @ Mon, 29 Jun 2020 23:09:04: 21000000 INFO @ Mon, 29 Jun 2020 23:09:06: 27000000 INFO @ Mon, 29 Jun 2020 23:09:07: 16000000 INFO @ Mon, 29 Jun 2020 23:09:10: 22000000 INFO @ Mon, 29 Jun 2020 23:09:12: 28000000 INFO @ Mon, 29 Jun 2020 23:09:12: 17000000 INFO @ Mon, 29 Jun 2020 23:09:16: 23000000 INFO @ Mon, 29 Jun 2020 23:09:17: 29000000 INFO @ Mon, 29 Jun 2020 23:09:18: 18000000 INFO @ Mon, 29 Jun 2020 23:09:21: 24000000 INFO @ Mon, 29 Jun 2020 23:09:23: 30000000 INFO @ Mon, 29 Jun 2020 23:09:23: 19000000 INFO @ Mon, 29 Jun 2020 23:09:27: 25000000 INFO @ Mon, 29 Jun 2020 23:09:28: 31000000 INFO @ Mon, 29 Jun 2020 23:09:29: 20000000 INFO @ Mon, 29 Jun 2020 23:09:33: 26000000 INFO @ Mon, 29 Jun 2020 23:09:34: 32000000 INFO @ Mon, 29 Jun 2020 23:09:35: #1 tag size is determined as 72 bps INFO @ Mon, 29 Jun 2020 23:09:35: #1 tag size = 72 INFO @ Mon, 29 Jun 2020 23:09:35: #1 total tags in treatment: 32099183 INFO @ Mon, 29 Jun 2020 23:09:35: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:09:35: #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 23:09:35: 21000000 INFO @ Mon, 29 Jun 2020 23:09:35: #1 tags after filtering in treatment: 32099183 INFO @ Mon, 29 Jun 2020 23:09:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:09:35: #1 finished! INFO @ Mon, 29 Jun 2020 23:09:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:09:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:09:37: #2 number of paired peaks: 10 WARNING @ Mon, 29 Jun 2020 23:09:37: Too few paired peaks (10) 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 23:09:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.05_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/SRX2564144/SRX2564144.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:09:38: 27000000 INFO @ Mon, 29 Jun 2020 23:09:40: 22000000 INFO @ Mon, 29 Jun 2020 23:09:44: 28000000 INFO @ Mon, 29 Jun 2020 23:09:46: 23000000 INFO @ Mon, 29 Jun 2020 23:09:49: 29000000 INFO @ Mon, 29 Jun 2020 23:09:52: 24000000 INFO @ Mon, 29 Jun 2020 23:09:55: 30000000 INFO @ Mon, 29 Jun 2020 23:09:57: 25000000 INFO @ Mon, 29 Jun 2020 23:10:00: 31000000 INFO @ Mon, 29 Jun 2020 23:10:03: 26000000 INFO @ Mon, 29 Jun 2020 23:10:06: 32000000 INFO @ Mon, 29 Jun 2020 23:10:07: #1 tag size is determined as 72 bps INFO @ Mon, 29 Jun 2020 23:10:07: #1 tag size = 72 INFO @ Mon, 29 Jun 2020 23:10:07: #1 total tags in treatment: 32099183 INFO @ Mon, 29 Jun 2020 23:10:07: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:10:07: #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 23:10:07: #1 tags after filtering in treatment: 32099183 INFO @ Mon, 29 Jun 2020 23:10:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:10:07: #1 finished! INFO @ Mon, 29 Jun 2020 23:10:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:10:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:10:08: 27000000 INFO @ Mon, 29 Jun 2020 23:10:09: #2 number of paired peaks: 10 WARNING @ Mon, 29 Jun 2020 23:10:09: Too few paired peaks (10) 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 23:10:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.10_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/SRX2564144/SRX2564144.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:10:14: 28000000 INFO @ Mon, 29 Jun 2020 23:10:19: 29000000 INFO @ Mon, 29 Jun 2020 23:10:24: 30000000 INFO @ Mon, 29 Jun 2020 23:10:29: 31000000 INFO @ Mon, 29 Jun 2020 23:10:35: 32000000 INFO @ Mon, 29 Jun 2020 23:10:35: #1 tag size is determined as 72 bps INFO @ Mon, 29 Jun 2020 23:10:35: #1 tag size = 72 INFO @ Mon, 29 Jun 2020 23:10:35: #1 total tags in treatment: 32099183 INFO @ Mon, 29 Jun 2020 23:10:35: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:10:35: #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 23:10:36: #1 tags after filtering in treatment: 32099183 INFO @ Mon, 29 Jun 2020 23:10:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:10:36: #1 finished! INFO @ Mon, 29 Jun 2020 23:10:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:10:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:10:38: #2 number of paired peaks: 10 WARNING @ Mon, 29 Jun 2020 23:10:38: Too few paired peaks (10) 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 23:10:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.20_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/SRX2564144/SRX2564144.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564144/SRX2564144.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。