Job ID = 5791574 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 34,940,577 reads read : 69,881,154 reads written : 69,881,154 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: 00:15:46 34940577 reads; of these: 34940577 (100.00%) were paired; of these: 3874071 (11.09%) aligned concordantly 0 times 27454832 (78.58%) aligned concordantly exactly 1 time 3611674 (10.34%) aligned concordantly >1 times ---- 3874071 pairs aligned concordantly 0 times; of these: 70707 (1.83%) aligned discordantly 1 time ---- 3803364 pairs aligned 0 times concordantly or discordantly; of these: 7606728 mates make up the pairs; of these: 7349216 (96.61%) aligned 0 times 198752 (2.61%) aligned exactly 1 time 58760 (0.77%) aligned >1 times 89.48% overall alignment rate Time searching: 00:15:46 Overall time: 00:15:46 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_sort_core] merging from 28 files... [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] 23913205 / 31081636 = 0.7694 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 10:22:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.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 10:22:27: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:22:27: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:22:32: 1000000 INFO @ Wed, 22 Apr 2020 10:22:37: 2000000 INFO @ Wed, 22 Apr 2020 10:22:41: 3000000 INFO @ Wed, 22 Apr 2020 10:22:46: 4000000 INFO @ Wed, 22 Apr 2020 10:22:50: 5000000 INFO @ Wed, 22 Apr 2020 10:22:55: 6000000 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 10:22:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.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 10:22:57: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:22:57: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:22:59: 7000000 INFO @ Wed, 22 Apr 2020 10:23:03: 1000000 INFO @ Wed, 22 Apr 2020 10:23:04: 8000000 INFO @ Wed, 22 Apr 2020 10:23:08: 2000000 INFO @ Wed, 22 Apr 2020 10:23:09: 9000000 INFO @ Wed, 22 Apr 2020 10:23:14: 10000000 INFO @ Wed, 22 Apr 2020 10:23:14: 3000000 INFO @ Wed, 22 Apr 2020 10:23:19: 11000000 INFO @ Wed, 22 Apr 2020 10:23:20: 4000000 INFO @ Wed, 22 Apr 2020 10:23:24: 12000000 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 10:23:25: 5000000 INFO @ Wed, 22 Apr 2020 10:23:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.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 10:23:27: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:23:27: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:23:29: 13000000 INFO @ Wed, 22 Apr 2020 10:23:31: 6000000 INFO @ Wed, 22 Apr 2020 10:23:32: 1000000 INFO @ Wed, 22 Apr 2020 10:23:34: 14000000 INFO @ Wed, 22 Apr 2020 10:23:37: 7000000 INFO @ Wed, 22 Apr 2020 10:23:37: 2000000 INFO @ Wed, 22 Apr 2020 10:23:37: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:23:37: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:23:37: #1 total tags in treatment: 7160025 INFO @ Wed, 22 Apr 2020 10:23:37: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:23:37: #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 10:23:37: #1 tags after filtering in treatment: 5611445 INFO @ Wed, 22 Apr 2020 10:23:37: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 22 Apr 2020 10:23:37: #1 finished! INFO @ Wed, 22 Apr 2020 10:23:37: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:23:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:23:38: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:23:38: Too few paired peaks (0) 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 10:23:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.05_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/SRX7409587/SRX7409587.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:23:42: 8000000 INFO @ Wed, 22 Apr 2020 10:23:43: 3000000 INFO @ Wed, 22 Apr 2020 10:23:48: 9000000 INFO @ Wed, 22 Apr 2020 10:23:48: 4000000 INFO @ Wed, 22 Apr 2020 10:23:53: 5000000 INFO @ Wed, 22 Apr 2020 10:23:54: 10000000 INFO @ Wed, 22 Apr 2020 10:23:59: 6000000 INFO @ Wed, 22 Apr 2020 10:23:59: 11000000 INFO @ Wed, 22 Apr 2020 10:24:04: 7000000 INFO @ Wed, 22 Apr 2020 10:24:05: 12000000 INFO @ Wed, 22 Apr 2020 10:24:09: 8000000 INFO @ Wed, 22 Apr 2020 10:24:10: 13000000 INFO @ Wed, 22 Apr 2020 10:24:15: 9000000 INFO @ Wed, 22 Apr 2020 10:24:16: 14000000 INFO @ Wed, 22 Apr 2020 10:24:20: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:24:20: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:24:20: #1 total tags in treatment: 7160025 INFO @ Wed, 22 Apr 2020 10:24:20: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:24:20: #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 10:24:20: #1 tags after filtering in treatment: 5611445 INFO @ Wed, 22 Apr 2020 10:24:20: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 22 Apr 2020 10:24:20: #1 finished! INFO @ Wed, 22 Apr 2020 10:24:20: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:24:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:24:20: 10000000 INFO @ Wed, 22 Apr 2020 10:24:20: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:24:20: Too few paired peaks (0) 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 10:24:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.10_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/SRX7409587/SRX7409587.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:24:25: 11000000 INFO @ Wed, 22 Apr 2020 10:24:30: 12000000 INFO @ Wed, 22 Apr 2020 10:24:35: 13000000 INFO @ Wed, 22 Apr 2020 10:24:39: 14000000 INFO @ Wed, 22 Apr 2020 10:24:43: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:24:43: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:24:43: #1 total tags in treatment: 7160025 INFO @ Wed, 22 Apr 2020 10:24:43: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:24:43: #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 10:24:43: #1 tags after filtering in treatment: 5611445 INFO @ Wed, 22 Apr 2020 10:24:43: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 22 Apr 2020 10:24:43: #1 finished! INFO @ Wed, 22 Apr 2020 10:24:43: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:24:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:24:43: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:24:43: Too few paired peaks (0) 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 10:24:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.20_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/SRX7409587/SRX7409587.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409587/SRX7409587.20_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。