Job ID = 14521215 SRX = SRX10468513 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5316735 spots for SRR14094824/SRR14094824.sra Written 5316735 spots for SRR14094824/SRR14094824.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: 00:02:49 5316735 reads; of these: 5316735 (100.00%) were paired; of these: 481667 (9.06%) aligned concordantly 0 times 4196653 (78.93%) aligned concordantly exactly 1 time 638415 (12.01%) aligned concordantly >1 times ---- 481667 pairs aligned concordantly 0 times; of these: 68966 (14.32%) aligned discordantly 1 time ---- 412701 pairs aligned 0 times concordantly or discordantly; of these: 825402 mates make up the pairs; of these: 725708 (87.92%) aligned 0 times 64128 (7.77%) aligned exactly 1 time 35566 (4.31%) aligned >1 times 93.18% overall alignment rate Time searching: 00:02:49 Overall time: 00:02:49 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_sort_core] merging from 8 files... [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] 176004 / 4858810 = 0.0362 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 20:43:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.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 20:43:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:43:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:43:26: 1000000 INFO @ Sat, 15 Jan 2022 20:43:31: 2000000 INFO @ Sat, 15 Jan 2022 20:43:35: 3000000 INFO @ Sat, 15 Jan 2022 20:43:39: 4000000 INFO @ Sat, 15 Jan 2022 20:43:43: 5000000 INFO @ Sat, 15 Jan 2022 20:43:47: 6000000 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 20:43:52: 7000000 INFO @ Sat, 15 Jan 2022 20:43:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.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 20:43:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:43:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:43:56: 8000000 INFO @ Sat, 15 Jan 2022 20:43:57: 1000000 INFO @ Sat, 15 Jan 2022 20:44:00: 9000000 INFO @ Sat, 15 Jan 2022 20:44:02: 2000000 INFO @ Sat, 15 Jan 2022 20:44:03: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:44:03: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:44:03: #1 total tags in treatment: 4659591 INFO @ Sat, 15 Jan 2022 20:44:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:44:03: #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 20:44:03: #1 tags after filtering in treatment: 3933113 INFO @ Sat, 15 Jan 2022 20:44:03: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:44:03: #1 finished! INFO @ Sat, 15 Jan 2022 20:44:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:44:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:44:03: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 20:44:03: Too few paired peaks (34) 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 20:44:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 20:44:07: 3000000 INFO @ Sat, 15 Jan 2022 20:44:12: 4000000 INFO @ Sat, 15 Jan 2022 20:44:18: 5000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 20:44:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.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 20:44:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:44:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:44:23: 6000000 INFO @ Sat, 15 Jan 2022 20:44:26: 1000000 INFO @ Sat, 15 Jan 2022 20:44:28: 7000000 INFO @ Sat, 15 Jan 2022 20:44:31: 2000000 INFO @ Sat, 15 Jan 2022 20:44:33: 8000000 INFO @ Sat, 15 Jan 2022 20:44:35: 3000000 INFO @ Sat, 15 Jan 2022 20:44:39: 9000000 INFO @ Sat, 15 Jan 2022 20:44:40: 4000000 INFO @ Sat, 15 Jan 2022 20:44:41: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:44:41: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:44:41: #1 total tags in treatment: 4659591 INFO @ Sat, 15 Jan 2022 20:44:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:44:41: #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 20:44:42: #1 tags after filtering in treatment: 3933113 INFO @ Sat, 15 Jan 2022 20:44:42: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:44:42: #1 finished! INFO @ Sat, 15 Jan 2022 20:44:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:44:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:44:42: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 20:44:42: Too few paired peaks (34) 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 20:44:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.10_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/SRX10468513/SRX10468513.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:44:44: 5000000 INFO @ Sat, 15 Jan 2022 20:44:48: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:44:52: 7000000 INFO @ Sat, 15 Jan 2022 20:44:57: 8000000 INFO @ Sat, 15 Jan 2022 20:45:01: 9000000 INFO @ Sat, 15 Jan 2022 20:45:03: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:45:03: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:45:03: #1 total tags in treatment: 4659591 INFO @ Sat, 15 Jan 2022 20:45:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:45:03: #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 20:45:03: #1 tags after filtering in treatment: 3933113 INFO @ Sat, 15 Jan 2022 20:45:03: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:45:03: #1 finished! INFO @ Sat, 15 Jan 2022 20:45:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:45:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:45:03: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 20:45:03: Too few paired peaks (34) 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 20:45:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.20_peaks.narrowPeak: No such file or directory BigWig に変換しました。 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468513/SRX10468513.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling