Job ID = 6527732 SRX = SRX2564149 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:12:07 prefetch.2.10.7: 1) Downloading 'SRR5259268'... 2020-06-29T13:12:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:18:36 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:18:36 prefetch.2.10.7: 1) 'SRR5259268' was downloaded successfully 2020-06-29T13:18:36 prefetch.2.10.7: 'SRR5259268' has 0 unresolved dependencies Read 43930448 spots for SRR5259268/SRR5259268.sra Written 43930448 spots for SRR5259268/SRR5259268.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: 00:13:14 43930448 reads; of these: 43930448 (100.00%) were unpaired; of these: 19319125 (43.98%) aligned 0 times 18508227 (42.13%) aligned exactly 1 time 6103096 (13.89%) aligned >1 times 56.02% overall alignment rate Time searching: 00:13:14 Overall time: 00:13:14 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] 5604474 / 24611323 = 0.2277 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 22:56:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.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 22:56:44: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:56:44: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:56:49: 1000000 INFO @ Mon, 29 Jun 2020 22:56:54: 2000000 INFO @ Mon, 29 Jun 2020 22:57:00: 3000000 INFO @ Mon, 29 Jun 2020 22:57:05: 4000000 INFO @ Mon, 29 Jun 2020 22:57:11: 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 22:57:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.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 22:57:14: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:57:14: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:57:16: 6000000 INFO @ Mon, 29 Jun 2020 22:57:20: 1000000 INFO @ Mon, 29 Jun 2020 22:57:22: 7000000 INFO @ Mon, 29 Jun 2020 22:57:25: 2000000 INFO @ Mon, 29 Jun 2020 22:57:28: 8000000 INFO @ Mon, 29 Jun 2020 22:57:31: 3000000 INFO @ Mon, 29 Jun 2020 22:57:33: 9000000 INFO @ Mon, 29 Jun 2020 22:57:37: 4000000 INFO @ Mon, 29 Jun 2020 22:57:39: 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 22:57:42: 5000000 INFO @ Mon, 29 Jun 2020 22:57:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.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 22:57:44: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:57:44: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:57:45: 11000000 INFO @ Mon, 29 Jun 2020 22:57:48: 6000000 INFO @ Mon, 29 Jun 2020 22:57:50: 12000000 INFO @ Mon, 29 Jun 2020 22:57:50: 1000000 INFO @ Mon, 29 Jun 2020 22:57:54: 7000000 INFO @ Mon, 29 Jun 2020 22:57:56: 13000000 INFO @ Mon, 29 Jun 2020 22:57:57: 2000000 INFO @ Mon, 29 Jun 2020 22:58:00: 8000000 INFO @ Mon, 29 Jun 2020 22:58:02: 14000000 INFO @ Mon, 29 Jun 2020 22:58:04: 3000000 INFO @ Mon, 29 Jun 2020 22:58:06: 9000000 INFO @ Mon, 29 Jun 2020 22:58:08: 15000000 INFO @ Mon, 29 Jun 2020 22:58:11: 4000000 INFO @ Mon, 29 Jun 2020 22:58:12: 10000000 INFO @ Mon, 29 Jun 2020 22:58:14: 16000000 INFO @ Mon, 29 Jun 2020 22:58:18: 5000000 INFO @ Mon, 29 Jun 2020 22:58:18: 11000000 INFO @ Mon, 29 Jun 2020 22:58:20: 17000000 INFO @ Mon, 29 Jun 2020 22:58:24: 12000000 INFO @ Mon, 29 Jun 2020 22:58:25: 6000000 INFO @ Mon, 29 Jun 2020 22:58:26: 18000000 INFO @ Mon, 29 Jun 2020 22:58:30: 13000000 INFO @ Mon, 29 Jun 2020 22:58:31: 19000000 INFO @ Mon, 29 Jun 2020 22:58:32: #1 tag size is determined as 72 bps INFO @ Mon, 29 Jun 2020 22:58:32: #1 tag size = 72 INFO @ Mon, 29 Jun 2020 22:58:32: #1 total tags in treatment: 19006849 INFO @ Mon, 29 Jun 2020 22:58:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:58:32: #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 22:58:32: 7000000 INFO @ Mon, 29 Jun 2020 22:58:32: #1 tags after filtering in treatment: 19006849 INFO @ Mon, 29 Jun 2020 22:58:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:58:32: #1 finished! INFO @ Mon, 29 Jun 2020 22:58:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:58:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:58:33: #2 number of paired peaks: 47 WARNING @ Mon, 29 Jun 2020 22:58:33: Too few paired peaks (47) 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 22:58:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.05_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/SRX2564149/SRX2564149.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:58:36: 14000000 INFO @ Mon, 29 Jun 2020 22:58:38: 8000000 INFO @ Mon, 29 Jun 2020 22:58:42: 15000000 INFO @ Mon, 29 Jun 2020 22:58:45: 9000000 INFO @ Mon, 29 Jun 2020 22:58:47: 16000000 INFO @ Mon, 29 Jun 2020 22:58:52: 10000000 INFO @ Mon, 29 Jun 2020 22:58:53: 17000000 INFO @ Mon, 29 Jun 2020 22:58:59: 11000000 INFO @ Mon, 29 Jun 2020 22:58:59: 18000000 INFO @ Mon, 29 Jun 2020 22:59:05: 19000000 INFO @ Mon, 29 Jun 2020 22:59:05: #1 tag size is determined as 72 bps INFO @ Mon, 29 Jun 2020 22:59:05: #1 tag size = 72 INFO @ Mon, 29 Jun 2020 22:59:05: #1 total tags in treatment: 19006849 INFO @ Mon, 29 Jun 2020 22:59:05: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:59:05: #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 22:59:05: #1 tags after filtering in treatment: 19006849 INFO @ Mon, 29 Jun 2020 22:59:05: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:59:05: #1 finished! INFO @ Mon, 29 Jun 2020 22:59:05: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:59:05: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:59:05: 12000000 INFO @ Mon, 29 Jun 2020 22:59:06: #2 number of paired peaks: 47 WARNING @ Mon, 29 Jun 2020 22:59:06: Too few paired peaks (47) 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 22:59:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.10_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/SRX2564149/SRX2564149.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:59:12: 13000000 INFO @ Mon, 29 Jun 2020 22:59:18: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:59:25: 15000000 INFO @ Mon, 29 Jun 2020 22:59:31: 16000000 INFO @ Mon, 29 Jun 2020 22:59:38: 17000000 INFO @ Mon, 29 Jun 2020 22:59:44: 18000000 INFO @ Mon, 29 Jun 2020 22:59:50: 19000000 INFO @ Mon, 29 Jun 2020 22:59:51: #1 tag size is determined as 72 bps INFO @ Mon, 29 Jun 2020 22:59:51: #1 tag size = 72 INFO @ Mon, 29 Jun 2020 22:59:51: #1 total tags in treatment: 19006849 INFO @ Mon, 29 Jun 2020 22:59:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:59:51: #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 22:59:51: #1 tags after filtering in treatment: 19006849 INFO @ Mon, 29 Jun 2020 22:59:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:59:51: #1 finished! INFO @ Mon, 29 Jun 2020 22:59:51: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:59:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:59:52: #2 number of paired peaks: 47 WARNING @ Mon, 29 Jun 2020 22:59:52: Too few paired peaks (47) 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 22:59:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.20_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/SRX2564149/SRX2564149.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564149/SRX2564149.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。