Job ID = 6527852 SRX = SRX287875 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:22:51 prefetch.2.10.7: 1) Downloading 'SRR870064'... 2020-06-29T14:22:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:25:07 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:25:07 prefetch.2.10.7: 1) 'SRR870064' was downloaded successfully Read 20138872 spots for SRR870064/SRR870064.sra Written 20138872 spots for SRR870064/SRR870064.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: 00:00:01 Multiseed full-index search: 00:06:17 20138872 reads; of these: 20138872 (100.00%) were unpaired; of these: 1270859 (6.31%) aligned 0 times 14331468 (71.16%) aligned exactly 1 time 4536545 (22.53%) aligned >1 times 93.69% overall alignment rate Time searching: 00:06:18 Overall time: 00:06:18 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] 2401985 / 18868013 = 0.1273 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 23:44:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.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 23:44:53: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:44:53: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:45:00: 1000000 INFO @ Mon, 29 Jun 2020 23:45:06: 2000000 INFO @ Mon, 29 Jun 2020 23:45:13: 3000000 INFO @ Mon, 29 Jun 2020 23:45:19: 4000000 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 23:45:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.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 23:45:23: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:45:23: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:45:26: 5000000 INFO @ Mon, 29 Jun 2020 23:45:32: 1000000 INFO @ Mon, 29 Jun 2020 23:45:33: 6000000 INFO @ Mon, 29 Jun 2020 23:45:39: 7000000 INFO @ Mon, 29 Jun 2020 23:45:41: 2000000 INFO @ Mon, 29 Jun 2020 23:45:46: 8000000 INFO @ Mon, 29 Jun 2020 23:45:49: 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 23:45:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.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 23:45:53: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:45:53: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:45:53: 9000000 INFO @ Mon, 29 Jun 2020 23:45:57: 4000000 INFO @ Mon, 29 Jun 2020 23:46:01: 1000000 INFO @ Mon, 29 Jun 2020 23:46:01: 10000000 INFO @ Mon, 29 Jun 2020 23:46:05: 5000000 INFO @ Mon, 29 Jun 2020 23:46:08: 11000000 INFO @ Mon, 29 Jun 2020 23:46:08: 2000000 INFO @ Mon, 29 Jun 2020 23:46:13: 6000000 INFO @ Mon, 29 Jun 2020 23:46:16: 12000000 INFO @ Mon, 29 Jun 2020 23:46:16: 3000000 INFO @ Mon, 29 Jun 2020 23:46:21: 7000000 INFO @ Mon, 29 Jun 2020 23:46:23: 13000000 INFO @ Mon, 29 Jun 2020 23:46:23: 4000000 INFO @ Mon, 29 Jun 2020 23:46:29: 8000000 INFO @ Mon, 29 Jun 2020 23:46:31: 14000000 INFO @ Mon, 29 Jun 2020 23:46:31: 5000000 INFO @ Mon, 29 Jun 2020 23:46:37: 9000000 INFO @ Mon, 29 Jun 2020 23:46:38: 15000000 INFO @ Mon, 29 Jun 2020 23:46:38: 6000000 INFO @ Mon, 29 Jun 2020 23:46:45: 10000000 INFO @ Mon, 29 Jun 2020 23:46:46: 16000000 INFO @ Mon, 29 Jun 2020 23:46:46: 7000000 INFO @ Mon, 29 Jun 2020 23:46:49: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:46:49: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:46:49: #1 total tags in treatment: 16466028 INFO @ Mon, 29 Jun 2020 23:46:49: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:46:49: #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 23:46:50: #1 tags after filtering in treatment: 16466028 INFO @ Mon, 29 Jun 2020 23:46:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:46:50: #1 finished! INFO @ Mon, 29 Jun 2020 23:46:50: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:46:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:46:51: #2 number of paired peaks: 70 WARNING @ Mon, 29 Jun 2020 23:46:51: Too few paired peaks (70) 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 23:46:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.05_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/SRX287875/SRX287875.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:46:52: 11000000 INFO @ Mon, 29 Jun 2020 23:46:53: 8000000 INFO @ Mon, 29 Jun 2020 23:47:00: 9000000 INFO @ Mon, 29 Jun 2020 23:47:00: 12000000 INFO @ Mon, 29 Jun 2020 23:47:06: 10000000 INFO @ Mon, 29 Jun 2020 23:47:08: 13000000 INFO @ Mon, 29 Jun 2020 23:47:13: 11000000 INFO @ Mon, 29 Jun 2020 23:47:16: 14000000 INFO @ Mon, 29 Jun 2020 23:47:20: 12000000 INFO @ Mon, 29 Jun 2020 23:47:24: 15000000 INFO @ Mon, 29 Jun 2020 23:47:26: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:47:31: 16000000 INFO @ Mon, 29 Jun 2020 23:47:33: 14000000 INFO @ Mon, 29 Jun 2020 23:47:35: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:47:35: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:47:35: #1 total tags in treatment: 16466028 INFO @ Mon, 29 Jun 2020 23:47:35: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:47:35: #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 23:47:35: #1 tags after filtering in treatment: 16466028 INFO @ Mon, 29 Jun 2020 23:47:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:47:35: #1 finished! INFO @ Mon, 29 Jun 2020 23:47:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:47:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:47:36: #2 number of paired peaks: 70 WARNING @ Mon, 29 Jun 2020 23:47:36: Too few paired peaks (70) 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 23:47:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.10_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/SRX287875/SRX287875.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:47:40: 15000000 INFO @ Mon, 29 Jun 2020 23:47:46: 16000000 INFO @ Mon, 29 Jun 2020 23:47:49: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:47:49: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:47:49: #1 total tags in treatment: 16466028 INFO @ Mon, 29 Jun 2020 23:47:49: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:47:49: #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 23:47:50: #1 tags after filtering in treatment: 16466028 INFO @ Mon, 29 Jun 2020 23:47:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:47:50: #1 finished! INFO @ Mon, 29 Jun 2020 23:47:50: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:47:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:47:51: #2 number of paired peaks: 70 WARNING @ Mon, 29 Jun 2020 23:47:51: Too few paired peaks (70) 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 23:47:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.20_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/SRX287875/SRX287875.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287875/SRX287875.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。