Job ID = 5791052 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 7,479,610 reads read : 14,959,220 reads written : 14,959,220 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: 00:02:29 7479610 reads; of these: 7479610 (100.00%) were paired; of these: 2571930 (34.39%) aligned concordantly 0 times 4452641 (59.53%) aligned concordantly exactly 1 time 455039 (6.08%) aligned concordantly >1 times ---- 2571930 pairs aligned concordantly 0 times; of these: 113347 (4.41%) aligned discordantly 1 time ---- 2458583 pairs aligned 0 times concordantly or discordantly; of these: 4917166 mates make up the pairs; of these: 3621349 (73.65%) aligned 0 times 1156243 (23.51%) aligned exactly 1 time 139574 (2.84%) aligned >1 times 75.79% overall alignment rate Time searching: 00:02:29 Overall time: 00:02:29 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 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] 623259 / 5000133 = 0.1246 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 08:29:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.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 08:29:38: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:29:38: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:29:43: 1000000 INFO @ Wed, 22 Apr 2020 08:29:48: 2000000 INFO @ Wed, 22 Apr 2020 08:29:53: 3000000 INFO @ Wed, 22 Apr 2020 08:29:58: 4000000 INFO @ Wed, 22 Apr 2020 08:30:03: 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 @ Wed, 22 Apr 2020 08:30:08: 6000000 INFO @ Wed, 22 Apr 2020 08:30:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.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 08:30:08: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:30:08: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:30:13: 7000000 INFO @ Wed, 22 Apr 2020 08:30:14: 1000000 INFO @ Wed, 22 Apr 2020 08:30:19: 8000000 INFO @ Wed, 22 Apr 2020 08:30:20: 2000000 INFO @ Wed, 22 Apr 2020 08:30:25: 9000000 INFO @ Wed, 22 Apr 2020 08:30:26: 3000000 INFO @ Wed, 22 Apr 2020 08:30:31: 10000000 INFO @ Wed, 22 Apr 2020 08:30:31: #1 tag size is determined as 38 bps INFO @ Wed, 22 Apr 2020 08:30:31: #1 tag size = 38 INFO @ Wed, 22 Apr 2020 08:30:31: #1 total tags in treatment: 4296245 INFO @ Wed, 22 Apr 2020 08:30:31: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:30:31: #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 08:30:31: #1 tags after filtering in treatment: 3535842 INFO @ Wed, 22 Apr 2020 08:30:31: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Apr 2020 08:30:31: #1 finished! INFO @ Wed, 22 Apr 2020 08:30:31: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:30:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:30:31: #2 number of paired peaks: 33 WARNING @ Wed, 22 Apr 2020 08:30:31: Too few paired peaks (33) 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 08:30:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.05_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/SRX5883276/SRX5883276.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:30:32: 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 @ Wed, 22 Apr 2020 08:30:37: 5000000 INFO @ Wed, 22 Apr 2020 08:30:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.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 08:30:38: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:30:38: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:30:43: 6000000 INFO @ Wed, 22 Apr 2020 08:30:45: 1000000 INFO @ Wed, 22 Apr 2020 08:30:49: 7000000 INFO @ Wed, 22 Apr 2020 08:30:51: 2000000 INFO @ Wed, 22 Apr 2020 08:30:55: 8000000 INFO @ Wed, 22 Apr 2020 08:30:57: 3000000 INFO @ Wed, 22 Apr 2020 08:31:01: 9000000 INFO @ Wed, 22 Apr 2020 08:31:03: 4000000 INFO @ Wed, 22 Apr 2020 08:31:08: 10000000 INFO @ Wed, 22 Apr 2020 08:31:08: #1 tag size is determined as 38 bps INFO @ Wed, 22 Apr 2020 08:31:08: #1 tag size = 38 INFO @ Wed, 22 Apr 2020 08:31:08: #1 total tags in treatment: 4296245 INFO @ Wed, 22 Apr 2020 08:31:08: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:31:08: #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 08:31:08: #1 tags after filtering in treatment: 3535842 INFO @ Wed, 22 Apr 2020 08:31:08: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Apr 2020 08:31:08: #1 finished! INFO @ Wed, 22 Apr 2020 08:31:08: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:31:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:31:08: #2 number of paired peaks: 33 WARNING @ Wed, 22 Apr 2020 08:31:08: Too few paired peaks (33) 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 08:31:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.10_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/sacCer3/SRX5883276/SRX5883276.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:31:09: 5000000 INFO @ Wed, 22 Apr 2020 08:31:15: 6000000 INFO @ Wed, 22 Apr 2020 08:31:21: 7000000 INFO @ Wed, 22 Apr 2020 08:31:27: 8000000 INFO @ Wed, 22 Apr 2020 08:31:32: 9000000 INFO @ Wed, 22 Apr 2020 08:31:38: 10000000 INFO @ Wed, 22 Apr 2020 08:31:38: #1 tag size is determined as 38 bps INFO @ Wed, 22 Apr 2020 08:31:38: #1 tag size = 38 INFO @ Wed, 22 Apr 2020 08:31:38: #1 total tags in treatment: 4296245 INFO @ Wed, 22 Apr 2020 08:31:38: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:31:38: #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 08:31:38: #1 tags after filtering in treatment: 3535842 INFO @ Wed, 22 Apr 2020 08:31:38: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Apr 2020 08:31:38: #1 finished! INFO @ Wed, 22 Apr 2020 08:31:38: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:31:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:31:38: #2 number of paired peaks: 33 WARNING @ Wed, 22 Apr 2020 08:31:38: Too few paired peaks (33) 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 08:31:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.20_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/sacCer3/SRX5883276/SRX5883276.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883276/SRX5883276.20_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。