Job ID = 5791054 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 1,276,833 reads read : 2,553,666 reads written : 2,553,666 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: 00:00:13 1276833 reads; of these: 1276833 (100.00%) were paired; of these: 994140 (77.86%) aligned concordantly 0 times 221597 (17.36%) aligned concordantly exactly 1 time 61096 (4.78%) aligned concordantly >1 times ---- 994140 pairs aligned concordantly 0 times; of these: 1174 (0.12%) aligned discordantly 1 time ---- 992966 pairs aligned 0 times concordantly or discordantly; of these: 1985932 mates make up the pairs; of these: 1896096 (95.48%) aligned 0 times 67978 (3.42%) aligned exactly 1 time 21858 (1.10%) aligned >1 times 25.75% overall alignment rate Time searching: 00:00:13 Overall time: 00:00:13 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] 85154 / 283534 = 0.3003 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 08:21:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.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 08:21:59: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:21:59: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:22:01: #1 tag size is determined as 39 bps INFO @ Wed, 22 Apr 2020 08:22:01: #1 tag size = 39 INFO @ Wed, 22 Apr 2020 08:22:01: #1 total tags in treatment: 197735 INFO @ Wed, 22 Apr 2020 08:22:01: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:22:01: #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 08:22:01: #1 tags after filtering in treatment: 182170 INFO @ Wed, 22 Apr 2020 08:22:01: #1 Redundant rate of treatment: 0.08 INFO @ Wed, 22 Apr 2020 08:22:01: #1 finished! INFO @ Wed, 22 Apr 2020 08:22:01: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:22:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:22:01: #2 number of paired peaks: 6 WARNING @ Wed, 22 Apr 2020 08:22:01: Too few paired peaks (6) 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 08:22:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.05_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/SRX5883278/SRX5883278.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.05_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 08:22:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.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 08:22:29: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:22:29: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:22:31: #1 tag size is determined as 39 bps INFO @ Wed, 22 Apr 2020 08:22:31: #1 tag size = 39 INFO @ Wed, 22 Apr 2020 08:22:31: #1 total tags in treatment: 197735 INFO @ Wed, 22 Apr 2020 08:22:31: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:22:31: #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 08:22:31: #1 tags after filtering in treatment: 182170 INFO @ Wed, 22 Apr 2020 08:22:31: #1 Redundant rate of treatment: 0.08 INFO @ Wed, 22 Apr 2020 08:22:31: #1 finished! INFO @ Wed, 22 Apr 2020 08:22:31: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:22:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:22:31: #2 number of paired peaks: 6 WARNING @ Wed, 22 Apr 2020 08:22:31: Too few paired peaks (6) 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 08:22:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.10_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/SRX5883278/SRX5883278.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.10_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 08:22:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.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 08:22:59: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:22:59: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:23:02: #1 tag size is determined as 39 bps INFO @ Wed, 22 Apr 2020 08:23:02: #1 tag size = 39 INFO @ Wed, 22 Apr 2020 08:23:02: #1 total tags in treatment: 197735 INFO @ Wed, 22 Apr 2020 08:23:02: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:23:02: #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 08:23:02: #1 tags after filtering in treatment: 182170 INFO @ Wed, 22 Apr 2020 08:23:02: #1 Redundant rate of treatment: 0.08 INFO @ Wed, 22 Apr 2020 08:23:02: #1 finished! INFO @ Wed, 22 Apr 2020 08:23:02: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:23:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:23:02: #2 number of paired peaks: 6 WARNING @ Wed, 22 Apr 2020 08:23:02: Too few paired peaks (6) 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 08:23:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.20_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/SRX5883278/SRX5883278.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883278/SRX5883278.20_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。