Job ID = 6527716 SRX = SRX245836 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:13:22 prefetch.2.10.7: 1) Downloading 'SRR765856'... 2020-06-29T13:13:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:15:27 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:15:28 prefetch.2.10.7: 'SRR765856' is valid 2020-06-29T13:15:28 prefetch.2.10.7: 1) 'SRR765856' was downloaded successfully Read 22803261 spots for SRR765856/SRR765856.sra Written 22803261 spots for SRR765856/SRR765856.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: 00:06:30 22803261 reads; of these: 22803261 (100.00%) were unpaired; of these: 1781852 (7.81%) aligned 0 times 16222154 (71.14%) aligned exactly 1 time 4799255 (21.05%) aligned >1 times 92.19% overall alignment rate Time searching: 00:06:30 Overall time: 00:06:30 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] 1643616 / 21021409 = 0.0782 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 22:31:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.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 22:31:52: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:31:52: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:31:57: 1000000 INFO @ Mon, 29 Jun 2020 22:32:02: 2000000 INFO @ Mon, 29 Jun 2020 22:32:07: 3000000 INFO @ Mon, 29 Jun 2020 22:32:12: 4000000 INFO @ Mon, 29 Jun 2020 22:32:16: 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 22:32:21: 6000000 INFO @ Mon, 29 Jun 2020 22:32:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.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 22:32:22: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:32:22: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:32:26: 7000000 INFO @ Mon, 29 Jun 2020 22:32:28: 1000000 INFO @ Mon, 29 Jun 2020 22:32:32: 8000000 INFO @ Mon, 29 Jun 2020 22:32:33: 2000000 INFO @ Mon, 29 Jun 2020 22:32:37: 9000000 INFO @ Mon, 29 Jun 2020 22:32:38: 3000000 INFO @ Mon, 29 Jun 2020 22:32:42: 10000000 INFO @ Mon, 29 Jun 2020 22:32:43: 4000000 INFO @ Mon, 29 Jun 2020 22:32:47: 11000000 INFO @ Mon, 29 Jun 2020 22:32:49: 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 22:32:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.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 22:32:52: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:32:52: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:32:53: 12000000 INFO @ Mon, 29 Jun 2020 22:32:54: 6000000 INFO @ Mon, 29 Jun 2020 22:32:58: 1000000 INFO @ Mon, 29 Jun 2020 22:32:58: 13000000 INFO @ Mon, 29 Jun 2020 22:32:59: 7000000 INFO @ Mon, 29 Jun 2020 22:33:03: 2000000 INFO @ Mon, 29 Jun 2020 22:33:03: 14000000 INFO @ Mon, 29 Jun 2020 22:33:05: 8000000 INFO @ Mon, 29 Jun 2020 22:33:08: 3000000 INFO @ Mon, 29 Jun 2020 22:33:09: 15000000 INFO @ Mon, 29 Jun 2020 22:33:10: 9000000 INFO @ Mon, 29 Jun 2020 22:33:14: 4000000 INFO @ Mon, 29 Jun 2020 22:33:14: 16000000 INFO @ Mon, 29 Jun 2020 22:33:15: 10000000 INFO @ Mon, 29 Jun 2020 22:33:19: 5000000 INFO @ Mon, 29 Jun 2020 22:33:20: 17000000 INFO @ Mon, 29 Jun 2020 22:33:21: 11000000 INFO @ Mon, 29 Jun 2020 22:33:24: 6000000 INFO @ Mon, 29 Jun 2020 22:33:25: 18000000 INFO @ Mon, 29 Jun 2020 22:33:26: 12000000 INFO @ Mon, 29 Jun 2020 22:33:29: 7000000 INFO @ Mon, 29 Jun 2020 22:33:30: 19000000 INFO @ Mon, 29 Jun 2020 22:33:31: 13000000 INFO @ Mon, 29 Jun 2020 22:33:32: #1 tag size is determined as 42 bps INFO @ Mon, 29 Jun 2020 22:33:32: #1 tag size = 42 INFO @ Mon, 29 Jun 2020 22:33:32: #1 total tags in treatment: 19377793 INFO @ Mon, 29 Jun 2020 22:33:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:33:32: #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 22:33:33: #1 tags after filtering in treatment: 19377793 INFO @ Mon, 29 Jun 2020 22:33:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:33:33: #1 finished! INFO @ Mon, 29 Jun 2020 22:33:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:33:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:33:34: #2 number of paired peaks: 74 WARNING @ Mon, 29 Jun 2020 22:33:34: Too few paired peaks (74) 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 22:33:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.05_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/SRX245836/SRX245836.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:33:35: 8000000 INFO @ Mon, 29 Jun 2020 22:33:37: 14000000 INFO @ Mon, 29 Jun 2020 22:33:40: 9000000 INFO @ Mon, 29 Jun 2020 22:33:42: 15000000 INFO @ Mon, 29 Jun 2020 22:33:45: 10000000 INFO @ Mon, 29 Jun 2020 22:33:47: 16000000 INFO @ Mon, 29 Jun 2020 22:33:51: 11000000 INFO @ Mon, 29 Jun 2020 22:33:53: 17000000 INFO @ Mon, 29 Jun 2020 22:33:56: 12000000 INFO @ Mon, 29 Jun 2020 22:33:58: 18000000 INFO @ Mon, 29 Jun 2020 22:34:01: 13000000 INFO @ Mon, 29 Jun 2020 22:34:03: 19000000 INFO @ Mon, 29 Jun 2020 22:34:05: #1 tag size is determined as 42 bps INFO @ Mon, 29 Jun 2020 22:34:05: #1 tag size = 42 INFO @ Mon, 29 Jun 2020 22:34:05: #1 total tags in treatment: 19377793 INFO @ Mon, 29 Jun 2020 22:34:05: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:34:05: #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 22:34:06: #1 tags after filtering in treatment: 19377793 INFO @ Mon, 29 Jun 2020 22:34:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:34:06: #1 finished! INFO @ Mon, 29 Jun 2020 22:34:06: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:34:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:34:07: 14000000 INFO @ Mon, 29 Jun 2020 22:34:07: #2 number of paired peaks: 74 WARNING @ Mon, 29 Jun 2020 22:34:07: Too few paired peaks (74) 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 22:34:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.10_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/SRX245836/SRX245836.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:34:12: 15000000 INFO @ Mon, 29 Jun 2020 22:34:17: 16000000 INFO @ Mon, 29 Jun 2020 22:34:22: 17000000 INFO @ Mon, 29 Jun 2020 22:34:27: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:34:32: 19000000 INFO @ Mon, 29 Jun 2020 22:34:34: #1 tag size is determined as 42 bps INFO @ Mon, 29 Jun 2020 22:34:34: #1 tag size = 42 INFO @ Mon, 29 Jun 2020 22:34:34: #1 total tags in treatment: 19377793 INFO @ Mon, 29 Jun 2020 22:34:34: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:34:34: #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 22:34:35: #1 tags after filtering in treatment: 19377793 INFO @ Mon, 29 Jun 2020 22:34:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:34:35: #1 finished! INFO @ Mon, 29 Jun 2020 22:34:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:34:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:34:36: #2 number of paired peaks: 74 WARNING @ Mon, 29 Jun 2020 22:34:36: Too few paired peaks (74) 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 22:34:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.20_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/SRX245836/SRX245836.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245836/SRX245836.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。