Job ID = 6527952 SRX = SRX3380791 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:06:48 prefetch.2.10.7: 1) Downloading 'SRR6278154'... 2020-06-29T14:06:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:08:57 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:08:58 prefetch.2.10.7: 'SRR6278154' is valid 2020-06-29T14:08:58 prefetch.2.10.7: 1) 'SRR6278154' was downloaded successfully Read 14950163 spots for SRR6278154/SRR6278154.sra Written 14950163 spots for SRR6278154/SRR6278154.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: 00:05:17 14950163 reads; of these: 14950163 (100.00%) were unpaired; of these: 499354 (3.34%) aligned 0 times 11106253 (74.29%) aligned exactly 1 time 3344556 (22.37%) aligned >1 times 96.66% overall alignment rate Time searching: 00:05:17 Overall time: 00:05:17 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] 1050156 / 14450809 = 0.0727 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 23:24:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.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 23:24:41: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:24:41: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:24:48: 1000000 INFO @ Mon, 29 Jun 2020 23:24:55: 2000000 INFO @ Mon, 29 Jun 2020 23:25:03: 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 @ Mon, 29 Jun 2020 23:25:10: 4000000 INFO @ Mon, 29 Jun 2020 23:25:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.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 23:25:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:25:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:25:18: 5000000 INFO @ Mon, 29 Jun 2020 23:25:19: 1000000 INFO @ Mon, 29 Jun 2020 23:25:25: 6000000 INFO @ Mon, 29 Jun 2020 23:25:26: 2000000 INFO @ Mon, 29 Jun 2020 23:25:33: 7000000 INFO @ Mon, 29 Jun 2020 23:25:34: 3000000 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 23:25:40: 8000000 INFO @ Mon, 29 Jun 2020 23:25:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.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 23:25:41: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:25:41: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:25:42: 4000000 INFO @ Mon, 29 Jun 2020 23:25:48: 9000000 INFO @ Mon, 29 Jun 2020 23:25:48: 1000000 INFO @ Mon, 29 Jun 2020 23:25:49: 5000000 INFO @ Mon, 29 Jun 2020 23:25:56: 10000000 INFO @ Mon, 29 Jun 2020 23:25:56: 2000000 INFO @ Mon, 29 Jun 2020 23:25:57: 6000000 INFO @ Mon, 29 Jun 2020 23:26:03: 11000000 INFO @ Mon, 29 Jun 2020 23:26:03: 3000000 INFO @ Mon, 29 Jun 2020 23:26:05: 7000000 INFO @ Mon, 29 Jun 2020 23:26:11: 4000000 INFO @ Mon, 29 Jun 2020 23:26:11: 12000000 INFO @ Mon, 29 Jun 2020 23:26:12: 8000000 INFO @ Mon, 29 Jun 2020 23:26:18: 5000000 INFO @ Mon, 29 Jun 2020 23:26:18: 13000000 INFO @ Mon, 29 Jun 2020 23:26:20: 9000000 INFO @ Mon, 29 Jun 2020 23:26:21: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:26:21: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:26:21: #1 total tags in treatment: 13400653 INFO @ Mon, 29 Jun 2020 23:26:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:26:21: #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 23:26:22: #1 tags after filtering in treatment: 13400653 INFO @ Mon, 29 Jun 2020 23:26:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:26:22: #1 finished! INFO @ Mon, 29 Jun 2020 23:26:22: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:26:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:26:23: #2 number of paired peaks: 67 WARNING @ Mon, 29 Jun 2020 23:26:23: Too few paired peaks (67) 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 23:26:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.05_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/SRX3380791/SRX3380791.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:26:25: 6000000 INFO @ Mon, 29 Jun 2020 23:26:27: 10000000 INFO @ Mon, 29 Jun 2020 23:26:32: 7000000 INFO @ Mon, 29 Jun 2020 23:26:34: 11000000 INFO @ Mon, 29 Jun 2020 23:26:39: 8000000 INFO @ Mon, 29 Jun 2020 23:26:41: 12000000 INFO @ Mon, 29 Jun 2020 23:26:46: 9000000 INFO @ Mon, 29 Jun 2020 23:26:49: 13000000 INFO @ Mon, 29 Jun 2020 23:26:51: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:26:51: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:26:51: #1 total tags in treatment: 13400653 INFO @ Mon, 29 Jun 2020 23:26:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:26:51: #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 23:26:52: #1 tags after filtering in treatment: 13400653 INFO @ Mon, 29 Jun 2020 23:26:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:26:52: #1 finished! INFO @ Mon, 29 Jun 2020 23:26:52: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:26:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:26:53: #2 number of paired peaks: 67 WARNING @ Mon, 29 Jun 2020 23:26:53: Too few paired peaks (67) 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 23:26:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.10_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/SRX3380791/SRX3380791.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:26:53: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:27:00: 11000000 INFO @ Mon, 29 Jun 2020 23:27:08: 12000000 INFO @ Mon, 29 Jun 2020 23:27:15: 13000000 INFO @ Mon, 29 Jun 2020 23:27:17: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:27:17: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:27:17: #1 total tags in treatment: 13400653 INFO @ Mon, 29 Jun 2020 23:27:17: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:27:17: #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 23:27:18: #1 tags after filtering in treatment: 13400653 INFO @ Mon, 29 Jun 2020 23:27:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:27:18: #1 finished! INFO @ Mon, 29 Jun 2020 23:27:18: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:27:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:27:18: #2 number of paired peaks: 67 WARNING @ Mon, 29 Jun 2020 23:27:18: Too few paired peaks (67) 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 23:27:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.20_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/SRX3380791/SRX3380791.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3380791/SRX3380791.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。