Job ID = 6527689 SRX = SRX231893 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:16:23 prefetch.2.10.7: 1) Downloading 'SRR696824'... 2020-06-29T13:16:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:18:06 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:18:06 prefetch.2.10.7: 'SRR696824' is valid 2020-06-29T13:18:06 prefetch.2.10.7: 1) 'SRR696824' was downloaded successfully Read 9830247 spots for SRR696824/SRR696824.sra Written 9830247 spots for SRR696824/SRR696824.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: 00:01:29 9830247 reads; of these: 9830247 (100.00%) were unpaired; of these: 4884566 (49.69%) aligned 0 times 3772641 (38.38%) aligned exactly 1 time 1173040 (11.93%) aligned >1 times 50.31% overall alignment rate Time searching: 00:01:29 Overall time: 00:01:29 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_rmdupse_core] 204144 / 4945681 = 0.0413 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 22:23:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.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 22:23:01: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:23:01: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:23:07: 1000000 INFO @ Mon, 29 Jun 2020 22:23:12: 2000000 INFO @ Mon, 29 Jun 2020 22:23:17: 3000000 INFO @ Mon, 29 Jun 2020 22:23:22: 4000000 INFO @ Mon, 29 Jun 2020 22:23:26: #1 tag size is determined as 35 bps INFO @ Mon, 29 Jun 2020 22:23:26: #1 tag size = 35 INFO @ Mon, 29 Jun 2020 22:23:26: #1 total tags in treatment: 4741537 INFO @ Mon, 29 Jun 2020 22:23:26: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:23:26: #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 22:23:26: #1 tags after filtering in treatment: 4741537 INFO @ Mon, 29 Jun 2020 22:23:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:23:26: #1 finished! INFO @ Mon, 29 Jun 2020 22:23:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:23:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:23:26: #2 number of paired peaks: 87 WARNING @ Mon, 29 Jun 2020 22:23:26: Too few paired peaks (87) 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 22:23:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.05_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/SRX231893/SRX231893.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 22:23:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.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 22:23:31: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:23:31: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:23:37: 1000000 INFO @ Mon, 29 Jun 2020 22:23:42: 2000000 INFO @ Mon, 29 Jun 2020 22:23:47: 3000000 INFO @ Mon, 29 Jun 2020 22:23:52: 4000000 INFO @ Mon, 29 Jun 2020 22:23:56: #1 tag size is determined as 35 bps INFO @ Mon, 29 Jun 2020 22:23:56: #1 tag size = 35 INFO @ Mon, 29 Jun 2020 22:23:56: #1 total tags in treatment: 4741537 INFO @ Mon, 29 Jun 2020 22:23:56: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:23:56: #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 22:23:56: #1 tags after filtering in treatment: 4741537 INFO @ Mon, 29 Jun 2020 22:23:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:23:56: #1 finished! INFO @ Mon, 29 Jun 2020 22:23:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:23:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:23:57: #2 number of paired peaks: 87 WARNING @ Mon, 29 Jun 2020 22:23:57: Too few paired peaks (87) 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 22:23:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.10_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/SRX231893/SRX231893.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 22:24:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.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 22:24:01: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:24:01: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:24:07: 1000000 INFO @ Mon, 29 Jun 2020 22:24:12: 2000000 INFO @ Mon, 29 Jun 2020 22:24:17: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:24:22: 4000000 INFO @ Mon, 29 Jun 2020 22:24:26: #1 tag size is determined as 35 bps INFO @ Mon, 29 Jun 2020 22:24:26: #1 tag size = 35 INFO @ Mon, 29 Jun 2020 22:24:26: #1 total tags in treatment: 4741537 INFO @ Mon, 29 Jun 2020 22:24:26: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:24:26: #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 22:24:26: #1 tags after filtering in treatment: 4741537 INFO @ Mon, 29 Jun 2020 22:24:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:24:26: #1 finished! INFO @ Mon, 29 Jun 2020 22:24:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:24:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:24:27: #2 number of paired peaks: 87 WARNING @ Mon, 29 Jun 2020 22:24:27: Too few paired peaks (87) 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 22:24:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.20_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/SRX231893/SRX231893.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX231893/SRX231893.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。