Job ID = 14521880 SRX = SRX4623311 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7479295 spots for SRR7767716/SRR7767716.sra Written 7479295 spots for SRR7767716/SRR7767716.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: 00:04:05 7479295 reads; of these: 7479295 (100.00%) were paired; of these: 1023834 (13.69%) aligned concordantly 0 times 3885661 (51.95%) aligned concordantly exactly 1 time 2569800 (34.36%) aligned concordantly >1 times ---- 1023834 pairs aligned concordantly 0 times; of these: 77820 (7.60%) aligned discordantly 1 time ---- 946014 pairs aligned 0 times concordantly or discordantly; of these: 1892028 mates make up the pairs; of these: 1751489 (92.57%) aligned 0 times 50605 (2.67%) aligned exactly 1 time 89934 (4.75%) aligned >1 times 88.29% overall alignment rate Time searching: 00:04:05 Overall time: 00:04:05 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] 792232 / 6531197 = 0.1213 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 21:53:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.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 21:53:51: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:53:51: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:54:00: 1000000 INFO @ Sat, 15 Jan 2022 21:54:08: 2000000 INFO @ Sat, 15 Jan 2022 21:54:17: 3000000 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 21:54:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.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 21:54:21: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:54:21: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:54:26: 4000000 INFO @ Sat, 15 Jan 2022 21:54:31: 1000000 INFO @ Sat, 15 Jan 2022 21:54:35: 5000000 INFO @ Sat, 15 Jan 2022 21:54:40: 2000000 INFO @ Sat, 15 Jan 2022 21:54:43: 6000000 INFO @ Sat, 15 Jan 2022 21:54:48: 3000000 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 21:54:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.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 21:54:51: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:54:51: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:54:52: 7000000 INFO @ Sat, 15 Jan 2022 21:54:56: 4000000 INFO @ Sat, 15 Jan 2022 21:55:00: 8000000 INFO @ Sat, 15 Jan 2022 21:55:02: 1000000 INFO @ Sat, 15 Jan 2022 21:55:05: 5000000 INFO @ Sat, 15 Jan 2022 21:55:08: 9000000 INFO @ Sat, 15 Jan 2022 21:55:12: 2000000 INFO @ Sat, 15 Jan 2022 21:55:13: 6000000 INFO @ Sat, 15 Jan 2022 21:55:17: 10000000 INFO @ Sat, 15 Jan 2022 21:55:21: 7000000 INFO @ Sat, 15 Jan 2022 21:55:23: 3000000 INFO @ Sat, 15 Jan 2022 21:55:25: 11000000 INFO @ Sat, 15 Jan 2022 21:55:29: 8000000 INFO @ Sat, 15 Jan 2022 21:55:30: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:55:30: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:55:30: #1 total tags in treatment: 5663570 INFO @ Sat, 15 Jan 2022 21:55:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:55:30: #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 21:55:30: #1 tags after filtering in treatment: 3758974 INFO @ Sat, 15 Jan 2022 21:55:30: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:55:30: #1 finished! INFO @ Sat, 15 Jan 2022 21:55:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:55:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:55:30: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:55:30: Too few paired peaks (30) 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 21:55:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.05_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/SRX4623311/SRX4623311.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:55:33: 4000000 INFO @ Sat, 15 Jan 2022 21:55:37: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:55:43: 5000000 INFO @ Sat, 15 Jan 2022 21:55:46: 10000000 INFO @ Sat, 15 Jan 2022 21:55:53: 6000000 INFO @ Sat, 15 Jan 2022 21:55:54: 11000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:55:59: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:55:59: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:55:59: #1 total tags in treatment: 5663570 INFO @ Sat, 15 Jan 2022 21:55:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:55:59: #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 21:55:59: #1 tags after filtering in treatment: 3758974 INFO @ Sat, 15 Jan 2022 21:55:59: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:55:59: #1 finished! INFO @ Sat, 15 Jan 2022 21:55:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:55:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:55:59: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:55:59: Too few paired peaks (30) 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 21:55:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.10_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/SRX4623311/SRX4623311.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:56:03: 7000000 INFO @ Sat, 15 Jan 2022 21:56:12: 8000000 INFO @ Sat, 15 Jan 2022 21:56:22: 9000000 INFO @ Sat, 15 Jan 2022 21:56:32: 10000000 INFO @ Sat, 15 Jan 2022 21:56:42: 11000000 INFO @ Sat, 15 Jan 2022 21:56:48: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:56:48: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:56:48: #1 total tags in treatment: 5663570 INFO @ Sat, 15 Jan 2022 21:56:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:56:48: #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 21:56:48: #1 tags after filtering in treatment: 3758974 INFO @ Sat, 15 Jan 2022 21:56:48: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:56:48: #1 finished! INFO @ Sat, 15 Jan 2022 21:56:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:56:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:56:48: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:56:48: Too few paired peaks (30) 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 21:56:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623311/SRX4623311.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling