Job ID = 5790990 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 2,836,711 reads read : 5,673,422 reads written : 5,673,422 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: 00:01:53 2836711 reads; of these: 2836711 (100.00%) were paired; of these: 108400 (3.82%) aligned concordantly 0 times 2479169 (87.40%) aligned concordantly exactly 1 time 249142 (8.78%) aligned concordantly >1 times ---- 108400 pairs aligned concordantly 0 times; of these: 1691 (1.56%) aligned discordantly 1 time ---- 106709 pairs aligned 0 times concordantly or discordantly; of these: 213418 mates make up the pairs; of these: 196313 (91.99%) aligned 0 times 13719 (6.43%) aligned exactly 1 time 3386 (1.59%) aligned >1 times 96.54% overall alignment rate Time searching: 00:01:53 Overall time: 00:01:53 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] 27402 / 2725468 = 0.0101 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 08:15:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.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 08:15:02: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:15:02: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:15:07: 1000000 INFO @ Wed, 22 Apr 2020 08:15:12: 2000000 INFO @ Wed, 22 Apr 2020 08:15:17: 3000000 INFO @ Wed, 22 Apr 2020 08:15:22: 4000000 INFO @ Wed, 22 Apr 2020 08:15:28: 5000000 INFO @ Wed, 22 Apr 2020 08:15:30: #1 tag size is determined as 74 bps INFO @ Wed, 22 Apr 2020 08:15:30: #1 tag size = 74 INFO @ Wed, 22 Apr 2020 08:15:30: #1 total tags in treatment: 2700910 INFO @ Wed, 22 Apr 2020 08:15:30: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:15:30: #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 08:15:30: #1 tags after filtering in treatment: 2523302 INFO @ Wed, 22 Apr 2020 08:15:30: #1 Redundant rate of treatment: 0.07 INFO @ Wed, 22 Apr 2020 08:15:30: #1 finished! INFO @ Wed, 22 Apr 2020 08:15:30: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:15:30: #2 looking for paired plus/minus strand peaks... 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 08:15:30: #2 number of paired peaks: 5 WARNING @ Wed, 22 Apr 2020 08:15:30: 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 08:15:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.05_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/SRX5874489/SRX5874489.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:15:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.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 08:15:32: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:15:32: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:15:37: 1000000 INFO @ Wed, 22 Apr 2020 08:15:42: 2000000 INFO @ Wed, 22 Apr 2020 08:15:47: 3000000 INFO @ Wed, 22 Apr 2020 08:15:52: 4000000 INFO @ Wed, 22 Apr 2020 08:15:58: 5000000 INFO @ Wed, 22 Apr 2020 08:16:00: #1 tag size is determined as 74 bps INFO @ Wed, 22 Apr 2020 08:16:00: #1 tag size = 74 INFO @ Wed, 22 Apr 2020 08:16:00: #1 total tags in treatment: 2700910 INFO @ Wed, 22 Apr 2020 08:16:00: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:16:00: #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 08:16:00: #1 tags after filtering in treatment: 2523302 INFO @ Wed, 22 Apr 2020 08:16:00: #1 Redundant rate of treatment: 0.07 INFO @ Wed, 22 Apr 2020 08:16:00: #1 finished! INFO @ Wed, 22 Apr 2020 08:16:00: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:16:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:16:00: #2 number of paired peaks: 5 WARNING @ Wed, 22 Apr 2020 08:16:00: 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 08:16:00: Process for pairing-model is terminated! BedGraph に変換中... cut: /home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.10_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/SRX5874489/SRX5874489.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.10_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 08:16:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.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 08:16:02: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:16:02: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:16:07: 1000000 INFO @ Wed, 22 Apr 2020 08:16:13: 2000000 INFO @ Wed, 22 Apr 2020 08:16:18: 3000000 INFO @ Wed, 22 Apr 2020 08:16:23: 4000000 INFO @ Wed, 22 Apr 2020 08:16:28: 5000000 INFO @ Wed, 22 Apr 2020 08:16:30: #1 tag size is determined as 74 bps INFO @ Wed, 22 Apr 2020 08:16:30: #1 tag size = 74 INFO @ Wed, 22 Apr 2020 08:16:30: #1 total tags in treatment: 2700910 INFO @ Wed, 22 Apr 2020 08:16:30: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:16:30: #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 08:16:30: #1 tags after filtering in treatment: 2523302 INFO @ Wed, 22 Apr 2020 08:16:30: #1 Redundant rate of treatment: 0.07 INFO @ Wed, 22 Apr 2020 08:16:30: #1 finished! INFO @ Wed, 22 Apr 2020 08:16:30: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:16:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:16:30: #2 number of paired peaks: 5 WARNING @ Wed, 22 Apr 2020 08:16:30: 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 08:16:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.20_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/SRX5874489/SRX5874489.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874489/SRX5874489.20_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。