Job ID = 6527472 SRX = SRX025464 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:51:12 prefetch.2.10.7: 1) Downloading 'SRR063857'... 2020-06-29T12:51:12 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:51:53 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:51:53 prefetch.2.10.7: 'SRR063857' is valid 2020-06-29T12:51:53 prefetch.2.10.7: 1) 'SRR063857' was downloaded successfully Read 4916658 spots for SRR063857/SRR063857.sra Written 4916658 spots for SRR063857/SRR063857.sra 2020-06-29T12:52:21 prefetch.2.10.7: 1) Downloading 'SRR066129'... 2020-06-29T12:52:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:53:55 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:53:56 prefetch.2.10.7: 'SRR066129' is valid 2020-06-29T12:53:56 prefetch.2.10.7: 1) 'SRR066129' was downloaded successfully Read 26106023 spots for SRR066129/SRR066129.sra Written 26106023 spots for SRR066129/SRR066129.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:07:20 31022681 reads; of these: 31022681 (100.00%) were unpaired; of these: 447704 (1.44%) aligned 0 times 25373230 (81.79%) aligned exactly 1 time 5201747 (16.77%) aligned >1 times 98.56% overall alignment rate Time searching: 00:07:21 Overall time: 00:07:21 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] 12395399 / 30574977 = 0.4054 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 22:14:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.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 22:14:28: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:14:28: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:14:33: 1000000 INFO @ Mon, 29 Jun 2020 22:14:38: 2000000 INFO @ Mon, 29 Jun 2020 22:14:43: 3000000 INFO @ Mon, 29 Jun 2020 22:14:48: 4000000 INFO @ Mon, 29 Jun 2020 22:14:53: 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 22:14:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.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 22:14:58: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:14:58: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:14:58: 6000000 INFO @ Mon, 29 Jun 2020 22:15:03: 1000000 INFO @ Mon, 29 Jun 2020 22:15:03: 7000000 INFO @ Mon, 29 Jun 2020 22:15:09: 8000000 INFO @ Mon, 29 Jun 2020 22:15:09: 2000000 INFO @ Mon, 29 Jun 2020 22:15:14: 9000000 INFO @ Mon, 29 Jun 2020 22:15:14: 3000000 INFO @ Mon, 29 Jun 2020 22:15:19: 10000000 INFO @ Mon, 29 Jun 2020 22:15:20: 4000000 INFO @ Mon, 29 Jun 2020 22:15:24: 11000000 INFO @ Mon, 29 Jun 2020 22:15:25: 5000000 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 22:15:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.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 22:15:28: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:15:28: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:15:30: 12000000 INFO @ Mon, 29 Jun 2020 22:15:31: 6000000 INFO @ Mon, 29 Jun 2020 22:15:33: 1000000 INFO @ Mon, 29 Jun 2020 22:15:35: 13000000 INFO @ Mon, 29 Jun 2020 22:15:36: 7000000 INFO @ Mon, 29 Jun 2020 22:15:38: 2000000 INFO @ Mon, 29 Jun 2020 22:15:40: 14000000 INFO @ Mon, 29 Jun 2020 22:15:42: 8000000 INFO @ Mon, 29 Jun 2020 22:15:44: 3000000 INFO @ Mon, 29 Jun 2020 22:15:46: 15000000 INFO @ Mon, 29 Jun 2020 22:15:47: 9000000 INFO @ Mon, 29 Jun 2020 22:15:49: 4000000 INFO @ Mon, 29 Jun 2020 22:15:51: 16000000 INFO @ Mon, 29 Jun 2020 22:15:53: 10000000 INFO @ Mon, 29 Jun 2020 22:15:54: 5000000 INFO @ Mon, 29 Jun 2020 22:15:56: 17000000 INFO @ Mon, 29 Jun 2020 22:15:59: 11000000 INFO @ Mon, 29 Jun 2020 22:16:00: 6000000 INFO @ Mon, 29 Jun 2020 22:16:02: 18000000 INFO @ Mon, 29 Jun 2020 22:16:03: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:16:03: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:16:03: #1 total tags in treatment: 18179578 INFO @ Mon, 29 Jun 2020 22:16:03: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:16:03: #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 22:16:03: #1 tags after filtering in treatment: 18179578 INFO @ Mon, 29 Jun 2020 22:16:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:16:03: #1 finished! INFO @ Mon, 29 Jun 2020 22:16:03: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:16:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:16:04: 12000000 INFO @ Mon, 29 Jun 2020 22:16:05: #2 number of paired peaks: 40 WARNING @ Mon, 29 Jun 2020 22:16:05: Too few paired peaks (40) 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 22:16:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.05_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/SRX025464/SRX025464.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:16:05: 7000000 INFO @ Mon, 29 Jun 2020 22:16:10: 13000000 INFO @ Mon, 29 Jun 2020 22:16:10: 8000000 INFO @ Mon, 29 Jun 2020 22:16:16: 14000000 INFO @ Mon, 29 Jun 2020 22:16:16: 9000000 INFO @ Mon, 29 Jun 2020 22:16:21: 10000000 INFO @ Mon, 29 Jun 2020 22:16:21: 15000000 INFO @ Mon, 29 Jun 2020 22:16:26: 11000000 INFO @ Mon, 29 Jun 2020 22:16:27: 16000000 INFO @ Mon, 29 Jun 2020 22:16:31: 12000000 INFO @ Mon, 29 Jun 2020 22:16:33: 17000000 INFO @ Mon, 29 Jun 2020 22:16:36: 13000000 INFO @ Mon, 29 Jun 2020 22:16:38: 18000000 INFO @ Mon, 29 Jun 2020 22:16:39: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:16:39: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:16:39: #1 total tags in treatment: 18179578 INFO @ Mon, 29 Jun 2020 22:16:39: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:16:39: #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 22:16:40: #1 tags after filtering in treatment: 18179578 INFO @ Mon, 29 Jun 2020 22:16:40: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:16:40: #1 finished! INFO @ Mon, 29 Jun 2020 22:16:40: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:16:40: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:16:41: #2 number of paired peaks: 40 WARNING @ Mon, 29 Jun 2020 22:16:41: Too few paired peaks (40) 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 22:16:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.10_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/SRX025464/SRX025464.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:16:42: 14000000 INFO @ Mon, 29 Jun 2020 22:16:47: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:16:52: 16000000 INFO @ Mon, 29 Jun 2020 22:16:57: 17000000 INFO @ Mon, 29 Jun 2020 22:17:02: 18000000 INFO @ Mon, 29 Jun 2020 22:17:03: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:17:03: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:17:03: #1 total tags in treatment: 18179578 INFO @ Mon, 29 Jun 2020 22:17:03: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:17:03: #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 22:17:04: #1 tags after filtering in treatment: 18179578 INFO @ Mon, 29 Jun 2020 22:17:04: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:17:04: #1 finished! INFO @ Mon, 29 Jun 2020 22:17:04: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:17:04: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:17:05: #2 number of paired peaks: 40 WARNING @ Mon, 29 Jun 2020 22:17:05: Too few paired peaks (40) 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 22:17:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.20_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/SRX025464/SRX025464.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025464/SRX025464.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。