Job ID = 5791122 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 5,498,926 reads read : 10,997,852 reads written : 10,997,852 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:02:11 5498926 reads; of these: 5498926 (100.00%) were paired; of these: 867233 (15.77%) aligned concordantly 0 times 4063590 (73.90%) aligned concordantly exactly 1 time 568103 (10.33%) aligned concordantly >1 times ---- 867233 pairs aligned concordantly 0 times; of these: 1744 (0.20%) aligned discordantly 1 time ---- 865489 pairs aligned 0 times concordantly or discordantly; of these: 1730978 mates make up the pairs; of these: 1668188 (96.37%) aligned 0 times 51164 (2.96%) aligned exactly 1 time 11626 (0.67%) aligned >1 times 84.83% overall alignment rate Time searching: 00:02:11 Overall time: 00:02:11 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 321456 / 4632583 = 0.0694 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 @ Wed, 22 Apr 2020 08:38:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Apr 2020 08:38:33: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:38:33: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:38:37: 1000000 INFO @ Wed, 22 Apr 2020 08:38:41: 2000000 INFO @ Wed, 22 Apr 2020 08:38:45: 3000000 INFO @ Wed, 22 Apr 2020 08:38:49: 4000000 INFO @ Wed, 22 Apr 2020 08:38:53: 5000000 INFO @ Wed, 22 Apr 2020 08:38:57: 6000000 INFO @ Wed, 22 Apr 2020 08:39:01: 7000000 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 @ Wed, 22 Apr 2020 08:39:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Apr 2020 08:39:03: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:39:03: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:39:05: 8000000 INFO @ Wed, 22 Apr 2020 08:39:07: 1000000 INFO @ Wed, 22 Apr 2020 08:39:08: #1 tag size is determined as 37 bps INFO @ Wed, 22 Apr 2020 08:39:08: #1 tag size = 37 INFO @ Wed, 22 Apr 2020 08:39:08: #1 total tags in treatment: 4310259 INFO @ Wed, 22 Apr 2020 08:39:08: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:39:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:39:08: #1 tags after filtering in treatment: 3029147 INFO @ Wed, 22 Apr 2020 08:39:08: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Apr 2020 08:39:08: #1 finished! INFO @ Wed, 22 Apr 2020 08:39:08: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:39:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:39:08: #2 number of paired peaks: 5 WARNING @ Wed, 22 Apr 2020 08:39:08: Too few paired peaks (5) 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 @ Wed, 22 Apr 2020 08:39:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.05_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/sacCer3/SRX6614918/SRX6614918.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:39:11: 2000000 INFO @ Wed, 22 Apr 2020 08:39:15: 3000000 INFO @ Wed, 22 Apr 2020 08:39:19: 4000000 INFO @ Wed, 22 Apr 2020 08:39:23: 5000000 INFO @ Wed, 22 Apr 2020 08:39:27: 6000000 INFO @ Wed, 22 Apr 2020 08:39:31: 7000000 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 @ Wed, 22 Apr 2020 08:39:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Apr 2020 08:39:33: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:39:33: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:39:35: 8000000 INFO @ Wed, 22 Apr 2020 08:39:37: 1000000 INFO @ Wed, 22 Apr 2020 08:39:38: #1 tag size is determined as 37 bps INFO @ Wed, 22 Apr 2020 08:39:38: #1 tag size = 37 INFO @ Wed, 22 Apr 2020 08:39:38: #1 total tags in treatment: 4310259 INFO @ Wed, 22 Apr 2020 08:39:38: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:39:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:39:38: #1 tags after filtering in treatment: 3029147 INFO @ Wed, 22 Apr 2020 08:39:38: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Apr 2020 08:39:38: #1 finished! INFO @ Wed, 22 Apr 2020 08:39:38: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:39:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:39:38: #2 number of paired peaks: 5 WARNING @ Wed, 22 Apr 2020 08:39:38: Too few paired peaks (5) 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 @ Wed, 22 Apr 2020 08:39:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.10_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/sacCer3/SRX6614918/SRX6614918.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:39:41: 2000000 INFO @ Wed, 22 Apr 2020 08:39:45: 3000000 INFO @ Wed, 22 Apr 2020 08:39:49: 4000000 INFO @ Wed, 22 Apr 2020 08:39:53: 5000000 INFO @ Wed, 22 Apr 2020 08:39:57: 6000000 INFO @ Wed, 22 Apr 2020 08:40:01: 7000000 INFO @ Wed, 22 Apr 2020 08:40:05: 8000000 INFO @ Wed, 22 Apr 2020 08:40:08: #1 tag size is determined as 37 bps INFO @ Wed, 22 Apr 2020 08:40:08: #1 tag size = 37 INFO @ Wed, 22 Apr 2020 08:40:08: #1 total tags in treatment: 4310259 INFO @ Wed, 22 Apr 2020 08:40:08: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:40:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:40:08: #1 tags after filtering in treatment: 3029147 INFO @ Wed, 22 Apr 2020 08:40:08: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Apr 2020 08:40:08: #1 finished! INFO @ Wed, 22 Apr 2020 08:40:08: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:40:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:40:08: #2 number of paired peaks: 5 WARNING @ Wed, 22 Apr 2020 08:40:08: Too few paired peaks (5) 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 @ Wed, 22 Apr 2020 08:40:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614918/SRX6614918.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。