Job ID = 5790996 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 1,919,858 reads read : 3,839,716 reads written : 3,839,716 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: 00:01:13 1919858 reads; of these: 1919858 (100.00%) were paired; of these: 196545 (10.24%) aligned concordantly 0 times 1561814 (81.35%) aligned concordantly exactly 1 time 161499 (8.41%) aligned concordantly >1 times ---- 196545 pairs aligned concordantly 0 times; of these: 584 (0.30%) aligned discordantly 1 time ---- 195961 pairs aligned 0 times concordantly or discordantly; of these: 391922 mates make up the pairs; of these: 383828 (97.93%) aligned 0 times 6392 (1.63%) aligned exactly 1 time 1702 (0.43%) aligned >1 times 90.00% overall alignment rate Time searching: 00:01:13 Overall time: 00:01:13 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] 13680 / 1722258 = 0.0079 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 08:13:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.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 08:13:23: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:13:23: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:13:31: 1000000 INFO @ Wed, 22 Apr 2020 08:13:38: 2000000 INFO @ Wed, 22 Apr 2020 08:13:46: 3000000 INFO @ Wed, 22 Apr 2020 08:13:50: #1 tag size is determined as 74 bps INFO @ Wed, 22 Apr 2020 08:13:50: #1 tag size = 74 INFO @ Wed, 22 Apr 2020 08:13:50: #1 total tags in treatment: 1709635 INFO @ Wed, 22 Apr 2020 08:13:50: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:13:50: #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 08:13:50: #1 tags after filtering in treatment: 1631935 INFO @ Wed, 22 Apr 2020 08:13:50: #1 Redundant rate of treatment: 0.05 INFO @ Wed, 22 Apr 2020 08:13:50: #1 finished! INFO @ Wed, 22 Apr 2020 08:13:50: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:13:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:13:50: #2 number of paired peaks: 32 WARNING @ Wed, 22 Apr 2020 08:13:50: 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 08:13:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.05_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/SRX5874495/SRX5874495.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.05_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 08:13:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.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 08:13:52: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:13:52: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:13:59: 1000000 INFO @ Wed, 22 Apr 2020 08:14:06: 2000000 INFO @ Wed, 22 Apr 2020 08:14:13: 3000000 INFO @ Wed, 22 Apr 2020 08:14:17: #1 tag size is determined as 74 bps INFO @ Wed, 22 Apr 2020 08:14:17: #1 tag size = 74 INFO @ Wed, 22 Apr 2020 08:14:17: #1 total tags in treatment: 1709635 INFO @ Wed, 22 Apr 2020 08:14:17: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:14:17: #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 08:14:17: #1 tags after filtering in treatment: 1631935 INFO @ Wed, 22 Apr 2020 08:14:17: #1 Redundant rate of treatment: 0.05 INFO @ Wed, 22 Apr 2020 08:14:17: #1 finished! INFO @ Wed, 22 Apr 2020 08:14:17: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:14:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:14:17: #2 number of paired peaks: 32 WARNING @ Wed, 22 Apr 2020 08:14:17: 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 08:14:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.10_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/SRX5874495/SRX5874495.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.10_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 08:14:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.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 08:14:22: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:14:22: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:14:30: 1000000 INFO @ Wed, 22 Apr 2020 08:14:38: 2000000 INFO @ Wed, 22 Apr 2020 08:14:47: 3000000 INFO @ Wed, 22 Apr 2020 08:14:50: #1 tag size is determined as 74 bps INFO @ Wed, 22 Apr 2020 08:14:50: #1 tag size = 74 INFO @ Wed, 22 Apr 2020 08:14:50: #1 total tags in treatment: 1709635 INFO @ Wed, 22 Apr 2020 08:14:50: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:14:50: #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 08:14:50: #1 tags after filtering in treatment: 1631935 INFO @ Wed, 22 Apr 2020 08:14:50: #1 Redundant rate of treatment: 0.05 INFO @ Wed, 22 Apr 2020 08:14:50: #1 finished! INFO @ Wed, 22 Apr 2020 08:14:50: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:14:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:14:50: #2 number of paired peaks: 32 WARNING @ Wed, 22 Apr 2020 08:14:50: 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 08:14:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.20_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/SRX5874495/SRX5874495.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874495/SRX5874495.20_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。