Job ID = 6528116 SRX = SRX4669064 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:35:21 prefetch.2.10.7: 1) Downloading 'SRR7817589'... 2020-06-29T14:35:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:36:15 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:36:15 prefetch.2.10.7: 'SRR7817589' is valid 2020-06-29T14:36:15 prefetch.2.10.7: 1) 'SRR7817589' was downloaded successfully 2020-06-29T14:36:15 prefetch.2.10.7: 'SRR7817589' has 0 unresolved dependencies Read 10033179 spots for SRR7817589/SRR7817589.sra Written 10033179 spots for SRR7817589/SRR7817589.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: 00:02:32 10033179 reads; of these: 10033179 (100.00%) were unpaired; of these: 535863 (5.34%) aligned 0 times 8003889 (79.77%) aligned exactly 1 time 1493427 (14.88%) aligned >1 times 94.66% overall alignment rate Time searching: 00:02:32 Overall time: 00:02:32 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] 743198 / 9497316 = 0.0783 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 23:43:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.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 23:43:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:43:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:43:48: 1000000 INFO @ Mon, 29 Jun 2020 23:43:55: 2000000 INFO @ Mon, 29 Jun 2020 23:44:01: 3000000 INFO @ Mon, 29 Jun 2020 23:44:07: 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 23:44:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.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 23:44:12: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:44:12: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:44:13: 5000000 INFO @ Mon, 29 Jun 2020 23:44:19: 1000000 INFO @ Mon, 29 Jun 2020 23:44:20: 6000000 INFO @ Mon, 29 Jun 2020 23:44:25: 2000000 INFO @ Mon, 29 Jun 2020 23:44:26: 7000000 INFO @ Mon, 29 Jun 2020 23:44:31: 3000000 INFO @ Mon, 29 Jun 2020 23:44:33: 8000000 INFO @ Mon, 29 Jun 2020 23:44:38: 4000000 INFO @ Mon, 29 Jun 2020 23:44:38: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:44:38: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:44:38: #1 total tags in treatment: 8754118 INFO @ Mon, 29 Jun 2020 23:44:38: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:44:38: #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 23:44:38: #1 tags after filtering in treatment: 8754118 INFO @ Mon, 29 Jun 2020 23:44:38: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:44:38: #1 finished! INFO @ Mon, 29 Jun 2020 23:44:38: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:44:38: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:44:39: #2 number of paired peaks: 73 WARNING @ Mon, 29 Jun 2020 23:44:39: Too few paired peaks (73) 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 23:44:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.05_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/SRX4669064/SRX4669064.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.05_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 23:44:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.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 23:44:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:44:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:44:44: 5000000 INFO @ Mon, 29 Jun 2020 23:44:48: 1000000 INFO @ Mon, 29 Jun 2020 23:44:50: 6000000 INFO @ Mon, 29 Jun 2020 23:44:53: 2000000 INFO @ Mon, 29 Jun 2020 23:44:57: 7000000 INFO @ Mon, 29 Jun 2020 23:44:59: 3000000 INFO @ Mon, 29 Jun 2020 23:45:04: 8000000 INFO @ Mon, 29 Jun 2020 23:45:05: 4000000 INFO @ Mon, 29 Jun 2020 23:45:09: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:45:09: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:45:09: #1 total tags in treatment: 8754118 INFO @ Mon, 29 Jun 2020 23:45:09: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:45:09: #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 23:45:09: #1 tags after filtering in treatment: 8754118 INFO @ Mon, 29 Jun 2020 23:45:09: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:45:09: #1 finished! INFO @ Mon, 29 Jun 2020 23:45:09: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:45:09: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:45:09: #2 number of paired peaks: 73 WARNING @ Mon, 29 Jun 2020 23:45:09: Too few paired peaks (73) 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 23:45:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.10_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/SRX4669064/SRX4669064.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:45:11: 5000000 INFO @ Mon, 29 Jun 2020 23:45:17: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:45:22: 7000000 INFO @ Mon, 29 Jun 2020 23:45:28: 8000000 INFO @ Mon, 29 Jun 2020 23:45:32: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:45:32: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:45:32: #1 total tags in treatment: 8754118 INFO @ Mon, 29 Jun 2020 23:45:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:45:32: #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 23:45:32: #1 tags after filtering in treatment: 8754118 INFO @ Mon, 29 Jun 2020 23:45:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:45:32: #1 finished! INFO @ Mon, 29 Jun 2020 23:45:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:45:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:45:33: #2 number of paired peaks: 73 WARNING @ Mon, 29 Jun 2020 23:45:33: Too few paired peaks (73) 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 23:45:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.20_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/SRX4669064/SRX4669064.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669064/SRX4669064.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。