Job ID = 14521010 SRX = SRX9397555 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4576688 spots for SRR12933796/SRR12933796.sra Written 4576688 spots for SRR12933796/SRR12933796.sra 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: 00:02:33 4576688 reads; of these: 4576688 (100.00%) were paired; of these: 851987 (18.62%) aligned concordantly 0 times 3127857 (68.34%) aligned concordantly exactly 1 time 596844 (13.04%) aligned concordantly >1 times ---- 851987 pairs aligned concordantly 0 times; of these: 130098 (15.27%) aligned discordantly 1 time ---- 721889 pairs aligned 0 times concordantly or discordantly; of these: 1443778 mates make up the pairs; of these: 1376932 (95.37%) aligned 0 times 19610 (1.36%) aligned exactly 1 time 47236 (3.27%) aligned >1 times 84.96% overall alignment rate Time searching: 00:02:33 Overall time: 00:02:33 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] 451658 / 3846158 = 0.1174 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:21:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.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 @ Sat, 15 Jan 2022 20:21:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:21:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:21:06: 1000000 INFO @ Sat, 15 Jan 2022 20:21:12: 2000000 INFO @ Sat, 15 Jan 2022 20:21:18: 3000000 INFO @ Sat, 15 Jan 2022 20:21:24: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:21:30: 5000000 INFO @ Sat, 15 Jan 2022 20:21:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.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 @ Sat, 15 Jan 2022 20:21:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:21:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:21:36: 1000000 INFO @ Sat, 15 Jan 2022 20:21:36: 6000000 INFO @ Sat, 15 Jan 2022 20:21:40: 2000000 INFO @ Sat, 15 Jan 2022 20:21:41: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:21:41: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:21:41: #1 total tags in treatment: 3280277 INFO @ Sat, 15 Jan 2022 20:21:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:21:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:21:41: #1 tags after filtering in treatment: 2344542 INFO @ Sat, 15 Jan 2022 20:21:41: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 20:21:41: #1 finished! INFO @ Sat, 15 Jan 2022 20:21:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:21:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:21:41: #2 number of paired peaks: 33 WARNING @ Sat, 15 Jan 2022 20:21:41: Too few paired peaks (33) 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 @ Sat, 15 Jan 2022 20:21:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.05_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/SRX9397555/SRX9397555.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:21:45: 3000000 INFO @ Sat, 15 Jan 2022 20:21:50: 4000000 INFO @ Sat, 15 Jan 2022 20:21:54: 5000000 INFO @ Sat, 15 Jan 2022 20:21:58: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:22:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.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 @ Sat, 15 Jan 2022 20:22:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:22:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:22:01: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:22:01: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:22:01: #1 total tags in treatment: 3280277 INFO @ Sat, 15 Jan 2022 20:22:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:22:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:22:01: #1 tags after filtering in treatment: 2344542 INFO @ Sat, 15 Jan 2022 20:22:01: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 20:22:01: #1 finished! INFO @ Sat, 15 Jan 2022 20:22:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:22:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:22:02: #2 number of paired peaks: 33 WARNING @ Sat, 15 Jan 2022 20:22:02: Too few paired peaks (33) 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 @ Sat, 15 Jan 2022 20:22:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.10_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/SRX9397555/SRX9397555.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:22:05: 1000000 INFO @ Sat, 15 Jan 2022 20:22:09: 2000000 INFO @ Sat, 15 Jan 2022 20:22:14: 3000000 INFO @ Sat, 15 Jan 2022 20:22:18: 4000000 INFO @ Sat, 15 Jan 2022 20:22:22: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:22:26: 6000000 INFO @ Sat, 15 Jan 2022 20:22:30: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:22:30: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:22:30: #1 total tags in treatment: 3280277 INFO @ Sat, 15 Jan 2022 20:22:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:22:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:22:30: #1 tags after filtering in treatment: 2344542 INFO @ Sat, 15 Jan 2022 20:22:30: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 20:22:30: #1 finished! INFO @ Sat, 15 Jan 2022 20:22:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:22:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:22:30: #2 number of paired peaks: 33 WARNING @ Sat, 15 Jan 2022 20:22:30: Too few paired peaks (33) 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 @ Sat, 15 Jan 2022 20:22:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.20_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/SRX9397555/SRX9397555.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397555/SRX9397555.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。