Job ID = 6528164 SRX = SRX4933880 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:29:37 prefetch.2.10.7: 1) Downloading 'SRR8107270'... 2020-06-29T14:29:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:32:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:32:23 prefetch.2.10.7: 'SRR8107270' is valid 2020-06-29T14:32:23 prefetch.2.10.7: 1) 'SRR8107270' was downloaded successfully Read 9946889 spots for SRR8107270/SRR8107270.sra Written 9946889 spots for SRR8107270/SRR8107270.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: 00:03:40 9946889 reads; of these: 9946889 (100.00%) were unpaired; of these: 273473 (2.75%) aligned 0 times 6514356 (65.49%) aligned exactly 1 time 3159060 (31.76%) aligned >1 times 97.25% overall alignment rate Time searching: 00:03:40 Overall time: 00:03:40 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] 670261 / 9673416 = 0.0693 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 23:41:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.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 23:41:38: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:41:38: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:41:44: 1000000 INFO @ Mon, 29 Jun 2020 23:41:50: 2000000 INFO @ Mon, 29 Jun 2020 23:41:55: 3000000 INFO @ Mon, 29 Jun 2020 23:42:01: 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 23:42:07: 5000000 INFO @ Mon, 29 Jun 2020 23:42:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.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 23:42:07: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:42:07: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:42:13: 6000000 INFO @ Mon, 29 Jun 2020 23:42:14: 1000000 INFO @ Mon, 29 Jun 2020 23:42:20: 7000000 INFO @ Mon, 29 Jun 2020 23:42:20: 2000000 INFO @ Mon, 29 Jun 2020 23:42:26: 8000000 INFO @ Mon, 29 Jun 2020 23:42:27: 3000000 INFO @ Mon, 29 Jun 2020 23:42:33: 9000000 INFO @ Mon, 29 Jun 2020 23:42:33: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:42:33: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:42:33: #1 total tags in treatment: 9003155 INFO @ Mon, 29 Jun 2020 23:42:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:42:33: #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 23:42:33: #1 tags after filtering in treatment: 9003155 INFO @ Mon, 29 Jun 2020 23:42:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:42:33: #1 finished! INFO @ Mon, 29 Jun 2020 23:42:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:42:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:42:33: 4000000 INFO @ Mon, 29 Jun 2020 23:42:33: #2 number of paired peaks: 14 WARNING @ Mon, 29 Jun 2020 23:42:33: Too few paired peaks (14) 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 23:42:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.05_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/SRX4933880/SRX4933880.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.05_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 23:42:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.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 23:42:37: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:42:37: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:42:39: 5000000 INFO @ Mon, 29 Jun 2020 23:42:44: 1000000 INFO @ Mon, 29 Jun 2020 23:42:45: 6000000 INFO @ Mon, 29 Jun 2020 23:42:51: 2000000 INFO @ Mon, 29 Jun 2020 23:42:52: 7000000 INFO @ Mon, 29 Jun 2020 23:42:57: 3000000 INFO @ Mon, 29 Jun 2020 23:42:58: 8000000 INFO @ Mon, 29 Jun 2020 23:43:04: 4000000 INFO @ Mon, 29 Jun 2020 23:43:05: 9000000 INFO @ Mon, 29 Jun 2020 23:43:05: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:43:05: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:43:05: #1 total tags in treatment: 9003155 INFO @ Mon, 29 Jun 2020 23:43:05: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:43:05: #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 23:43:05: #1 tags after filtering in treatment: 9003155 INFO @ Mon, 29 Jun 2020 23:43:05: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:43:05: #1 finished! INFO @ Mon, 29 Jun 2020 23:43:05: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:43:05: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:43:06: #2 number of paired peaks: 14 WARNING @ Mon, 29 Jun 2020 23:43:06: Too few paired peaks (14) 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 23:43:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.10_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/SRX4933880/SRX4933880.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:43:10: 5000000 INFO @ Mon, 29 Jun 2020 23:43:16: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:43:22: 7000000 INFO @ Mon, 29 Jun 2020 23:43:28: 8000000 INFO @ Mon, 29 Jun 2020 23:43:35: 9000000 INFO @ Mon, 29 Jun 2020 23:43:35: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:43:35: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:43:35: #1 total tags in treatment: 9003155 INFO @ Mon, 29 Jun 2020 23:43:35: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:43:35: #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 23:43:35: #1 tags after filtering in treatment: 9003155 INFO @ Mon, 29 Jun 2020 23:43:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:43:35: #1 finished! INFO @ Mon, 29 Jun 2020 23:43:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:43:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:43:35: #2 number of paired peaks: 14 WARNING @ Mon, 29 Jun 2020 23:43:35: Too few paired peaks (14) 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 23:43:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.20_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/SRX4933880/SRX4933880.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933880/SRX4933880.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。