Job ID = 5791222 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 978,500 reads read : 1,957,000 reads written : 1,957,000 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: 00:00:28 978500 reads; of these: 978500 (100.00%) were paired; of these: 198734 (20.31%) aligned concordantly 0 times 603482 (61.67%) aligned concordantly exactly 1 time 176284 (18.02%) aligned concordantly >1 times ---- 198734 pairs aligned concordantly 0 times; of these: 7412 (3.73%) aligned discordantly 1 time ---- 191322 pairs aligned 0 times concordantly or discordantly; of these: 382644 mates make up the pairs; of these: 241426 (63.09%) aligned 0 times 102715 (26.84%) aligned exactly 1 time 38503 (10.06%) aligned >1 times 87.66% overall alignment rate Time searching: 00:00:28 Overall time: 00:00:28 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] 87240 / 786284 = 0.1110 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 09:04:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.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 09:04:48: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:04:48: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:04:52: 1000000 INFO @ Wed, 22 Apr 2020 09:04:54: #1 tag size is determined as 39 bps INFO @ Wed, 22 Apr 2020 09:04:54: #1 tag size = 39 INFO @ Wed, 22 Apr 2020 09:04:54: #1 total tags in treatment: 692809 INFO @ Wed, 22 Apr 2020 09:04:54: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:04:54: #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 09:04:54: #1 tags after filtering in treatment: 580176 INFO @ Wed, 22 Apr 2020 09:04:54: #1 Redundant rate of treatment: 0.16 INFO @ Wed, 22 Apr 2020 09:04:54: #1 finished! INFO @ Wed, 22 Apr 2020 09:04:54: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:04:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:04:54: #2 number of paired peaks: 32 WARNING @ Wed, 22 Apr 2020 09:04:54: Too few paired peaks (32) 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 09:04:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.05_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/SRX7135962/SRX7135962.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 09:05:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.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 09:05:18: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:05:18: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:05:22: 1000000 INFO @ Wed, 22 Apr 2020 09:05:25: #1 tag size is determined as 39 bps INFO @ Wed, 22 Apr 2020 09:05:25: #1 tag size = 39 INFO @ Wed, 22 Apr 2020 09:05:25: #1 total tags in treatment: 692809 INFO @ Wed, 22 Apr 2020 09:05:25: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:05:25: #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 09:05:25: #1 tags after filtering in treatment: 580176 INFO @ Wed, 22 Apr 2020 09:05:25: #1 Redundant rate of treatment: 0.16 INFO @ Wed, 22 Apr 2020 09:05:25: #1 finished! INFO @ Wed, 22 Apr 2020 09:05:25: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:05:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:05:25: #2 number of paired peaks: 32 WARNING @ Wed, 22 Apr 2020 09:05:25: Too few paired peaks (32) 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 09:05:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.10_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/SRX7135962/SRX7135962.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.10_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 @ Wed, 22 Apr 2020 09:05:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.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 09:05:48: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:05:48: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:05:52: 1000000 INFO @ Wed, 22 Apr 2020 09:05:54: #1 tag size is determined as 39 bps INFO @ Wed, 22 Apr 2020 09:05:54: #1 tag size = 39 INFO @ Wed, 22 Apr 2020 09:05:54: #1 total tags in treatment: 692809 INFO @ Wed, 22 Apr 2020 09:05:54: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:05:54: #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 09:05:55: #1 tags after filtering in treatment: 580176 INFO @ Wed, 22 Apr 2020 09:05:55: #1 Redundant rate of treatment: 0.16 INFO @ Wed, 22 Apr 2020 09:05:55: #1 finished! INFO @ Wed, 22 Apr 2020 09:05:55: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:05:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:05:55: #2 number of paired peaks: 32 WARNING @ Wed, 22 Apr 2020 09:05:55: Too few paired peaks (32) 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 09:05:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.20_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/SRX7135962/SRX7135962.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7135962/SRX7135962.20_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。