Job ID = 6528286 SRX = SRX5243665 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:56:14 prefetch.2.10.7: 1) Downloading 'SRR8436122'... 2020-06-29T14:56:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:57:42 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:57:42 prefetch.2.10.7: 'SRR8436122' is valid 2020-06-29T14:57:42 prefetch.2.10.7: 1) 'SRR8436122' was downloaded successfully Read 9791909 spots for SRR8436122/SRR8436122.sra Written 9791909 spots for SRR8436122/SRR8436122.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: 00:02:48 9791909 reads; of these: 9791909 (100.00%) were unpaired; of these: 302250 (3.09%) aligned 0 times 7317234 (74.73%) aligned exactly 1 time 2172425 (22.19%) aligned >1 times 96.91% overall alignment rate Time searching: 00:02:48 Overall time: 00:02:48 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] 1648747 / 9489659 = 0.1737 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 @ Tue, 30 Jun 2020 00:06:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.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 @ Tue, 30 Jun 2020 00:06:02: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:06:02: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:06:07: 1000000 INFO @ Tue, 30 Jun 2020 00:06:13: 2000000 INFO @ Tue, 30 Jun 2020 00:06:19: 3000000 INFO @ Tue, 30 Jun 2020 00:06:24: 4000000 INFO @ Tue, 30 Jun 2020 00:06:30: 5000000 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 @ Tue, 30 Jun 2020 00:06:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.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 @ Tue, 30 Jun 2020 00:06:32: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:06:32: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:06:35: 6000000 INFO @ Tue, 30 Jun 2020 00:06:38: 1000000 INFO @ Tue, 30 Jun 2020 00:06:42: 7000000 INFO @ Tue, 30 Jun 2020 00:06:44: 2000000 INFO @ Tue, 30 Jun 2020 00:06:47: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:06:47: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:06:47: #1 total tags in treatment: 7840912 INFO @ Tue, 30 Jun 2020 00:06:47: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:06:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:06:47: #1 tags after filtering in treatment: 7840912 INFO @ Tue, 30 Jun 2020 00:06:47: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:06:47: #1 finished! INFO @ Tue, 30 Jun 2020 00:06:47: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:06:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:06:47: #2 number of paired peaks: 22 WARNING @ Tue, 30 Jun 2020 00:06:47: Too few paired peaks (22) 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 @ Tue, 30 Jun 2020 00:06:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.05_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/SRX5243665/SRX5243665.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:06:50: 3000000 INFO @ Tue, 30 Jun 2020 00:06:56: 4000000 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 @ Tue, 30 Jun 2020 00:07:02: 5000000 INFO @ Tue, 30 Jun 2020 00:07:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.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 @ Tue, 30 Jun 2020 00:07:02: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:07:02: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:07:08: 6000000 INFO @ Tue, 30 Jun 2020 00:07:08: 1000000 INFO @ Tue, 30 Jun 2020 00:07:14: 7000000 INFO @ Tue, 30 Jun 2020 00:07:14: 2000000 INFO @ Tue, 30 Jun 2020 00:07:19: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:07:19: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:07:19: #1 total tags in treatment: 7840912 INFO @ Tue, 30 Jun 2020 00:07:19: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:07:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:07:19: #1 tags after filtering in treatment: 7840912 INFO @ Tue, 30 Jun 2020 00:07:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:07:19: #1 finished! INFO @ Tue, 30 Jun 2020 00:07:19: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:07:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:07:20: #2 number of paired peaks: 22 WARNING @ Tue, 30 Jun 2020 00:07:20: Too few paired peaks (22) 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 @ Tue, 30 Jun 2020 00:07:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.10_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/SRX5243665/SRX5243665.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:07:21: 3000000 INFO @ Tue, 30 Jun 2020 00:07:26: 4000000 INFO @ Tue, 30 Jun 2020 00:07:32: 5000000 INFO @ Tue, 30 Jun 2020 00:07:38: 6000000 INFO @ Tue, 30 Jun 2020 00:07:43: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:07:48: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:07:48: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:07:48: #1 total tags in treatment: 7840912 INFO @ Tue, 30 Jun 2020 00:07:48: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:07:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:07:48: #1 tags after filtering in treatment: 7840912 INFO @ Tue, 30 Jun 2020 00:07:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:07:48: #1 finished! INFO @ Tue, 30 Jun 2020 00:07:48: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:07:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:07:49: #2 number of paired peaks: 22 WARNING @ Tue, 30 Jun 2020 00:07:49: Too few paired peaks (22) 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 @ Tue, 30 Jun 2020 00:07:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.20_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/SRX5243665/SRX5243665.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243665/SRX5243665.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。