Job ID = 5790957 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 1,682,590 reads read : 3,365,180 reads written : 3,365,180 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: 00:01:08 1682590 reads; of these: 1682590 (100.00%) were paired; of these: 78547 (4.67%) aligned concordantly 0 times 1443473 (85.79%) aligned concordantly exactly 1 time 160570 (9.54%) aligned concordantly >1 times ---- 78547 pairs aligned concordantly 0 times; of these: 9330 (11.88%) aligned discordantly 1 time ---- 69217 pairs aligned 0 times concordantly or discordantly; of these: 138434 mates make up the pairs; of these: 124573 (89.99%) aligned 0 times 9663 (6.98%) aligned exactly 1 time 4198 (3.03%) aligned >1 times 96.30% overall alignment rate Time searching: 00:01:08 Overall time: 00:01:08 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] 12079 / 1593708 = 0.0076 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 08:10:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.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 08:10:18: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:10:18: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:10:25: 1000000 INFO @ Wed, 22 Apr 2020 08:10:33: 2000000 INFO @ Wed, 22 Apr 2020 08:10:41: 3000000 INFO @ Wed, 22 Apr 2020 08:10:42: #1 tag size is determined as 75 bps INFO @ Wed, 22 Apr 2020 08:10:42: #1 tag size = 75 INFO @ Wed, 22 Apr 2020 08:10:42: #1 total tags in treatment: 1591980 INFO @ Wed, 22 Apr 2020 08:10:42: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:10:42: #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 08:10:42: #1 tags after filtering in treatment: 1519574 INFO @ Wed, 22 Apr 2020 08:10:42: #1 Redundant rate of treatment: 0.05 INFO @ Wed, 22 Apr 2020 08:10:42: #1 finished! INFO @ Wed, 22 Apr 2020 08:10:42: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:10:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:10:42: #2 number of paired peaks: 32 WARNING @ Wed, 22 Apr 2020 08:10:42: 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 08:10:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.05_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/SRX5874471/SRX5874471.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.05_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 08:10:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.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 08:10:48: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:10:48: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:10:55: 1000000 INFO @ Wed, 22 Apr 2020 08:11:02: 2000000 INFO @ Wed, 22 Apr 2020 08:11:10: 3000000 INFO @ Wed, 22 Apr 2020 08:11:11: #1 tag size is determined as 75 bps INFO @ Wed, 22 Apr 2020 08:11:11: #1 tag size = 75 INFO @ Wed, 22 Apr 2020 08:11:11: #1 total tags in treatment: 1591980 INFO @ Wed, 22 Apr 2020 08:11:11: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:11:11: #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 08:11:11: #1 tags after filtering in treatment: 1519574 INFO @ Wed, 22 Apr 2020 08:11:11: #1 Redundant rate of treatment: 0.05 INFO @ Wed, 22 Apr 2020 08:11:11: #1 finished! INFO @ Wed, 22 Apr 2020 08:11:11: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:11:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:11:11: #2 number of paired peaks: 32 WARNING @ Wed, 22 Apr 2020 08:11:11: 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 08:11:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.10_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/SRX5874471/SRX5874471.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.10_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 08:11:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.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 08:11:18: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:11:18: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:11:25: 1000000 INFO @ Wed, 22 Apr 2020 08:11:32: 2000000 INFO @ Wed, 22 Apr 2020 08:11:39: 3000000 INFO @ Wed, 22 Apr 2020 08:11:41: #1 tag size is determined as 75 bps INFO @ Wed, 22 Apr 2020 08:11:41: #1 tag size = 75 INFO @ Wed, 22 Apr 2020 08:11:41: #1 total tags in treatment: 1591980 INFO @ Wed, 22 Apr 2020 08:11:41: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:11:41: #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 08:11:41: #1 tags after filtering in treatment: 1519574 INFO @ Wed, 22 Apr 2020 08:11:41: #1 Redundant rate of treatment: 0.05 INFO @ Wed, 22 Apr 2020 08:11:41: #1 finished! INFO @ Wed, 22 Apr 2020 08:11:41: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:11:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:11:41: #2 number of paired peaks: 32 WARNING @ Wed, 22 Apr 2020 08:11:41: 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 08:11:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.20_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/SRX5874471/SRX5874471.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874471/SRX5874471.20_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。