Job ID = 14521119 SRX = SRX10828617 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7818781 spots for SRR14480442/SRR14480442.sra Written 7818781 spots for SRR14480442/SRR14480442.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: 00:07:07 7818781 reads; of these: 7818781 (100.00%) were paired; of these: 1434492 (18.35%) aligned concordantly 0 times 5365586 (68.62%) aligned concordantly exactly 1 time 1018703 (13.03%) aligned concordantly >1 times ---- 1434492 pairs aligned concordantly 0 times; of these: 98316 (6.85%) aligned discordantly 1 time ---- 1336176 pairs aligned 0 times concordantly or discordantly; of these: 2672352 mates make up the pairs; of these: 2505742 (93.77%) aligned 0 times 109418 (4.09%) aligned exactly 1 time 57192 (2.14%) aligned >1 times 83.98% overall alignment rate Time searching: 00:07:07 Overall time: 00:07:07 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] 1690889 / 6466720 = 0.2615 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 20:40:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.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 20:40:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:40:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:40:51: 1000000 INFO @ Sat, 15 Jan 2022 20:41:02: 2000000 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 20:41:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.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 20:41:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:41:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:41:13: 3000000 INFO @ Sat, 15 Jan 2022 20:41:19: 1000000 INFO @ Sat, 15 Jan 2022 20:41:24: 4000000 INFO @ Sat, 15 Jan 2022 20:41:29: 2000000 INFO @ Sat, 15 Jan 2022 20:41:35: 5000000 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 20:41:39: 3000000 INFO @ Sat, 15 Jan 2022 20:41:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.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 20:41:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:41:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:41:46: 6000000 INFO @ Sat, 15 Jan 2022 20:41:49: 4000000 INFO @ Sat, 15 Jan 2022 20:41:50: 1000000 INFO @ Sat, 15 Jan 2022 20:41:58: 7000000 INFO @ Sat, 15 Jan 2022 20:41:59: 5000000 INFO @ Sat, 15 Jan 2022 20:42:00: 2000000 INFO @ Sat, 15 Jan 2022 20:42:08: 6000000 INFO @ Sat, 15 Jan 2022 20:42:09: 8000000 INFO @ Sat, 15 Jan 2022 20:42:10: 3000000 INFO @ Sat, 15 Jan 2022 20:42:18: 7000000 INFO @ Sat, 15 Jan 2022 20:42:19: 4000000 INFO @ Sat, 15 Jan 2022 20:42:21: 9000000 INFO @ Sat, 15 Jan 2022 20:42:28: 8000000 INFO @ Sat, 15 Jan 2022 20:42:29: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:42:29: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:42:29: #1 total tags in treatment: 4710849 INFO @ Sat, 15 Jan 2022 20:42:29: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:42:29: #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 20:42:29: #1 tags after filtering in treatment: 3190647 INFO @ Sat, 15 Jan 2022 20:42:29: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 20:42:29: #1 finished! INFO @ Sat, 15 Jan 2022 20:42:29: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:42:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:42:30: 5000000 INFO @ Sat, 15 Jan 2022 20:42:30: #2 number of paired peaks: 5 WARNING @ Sat, 15 Jan 2022 20:42:30: Too few paired peaks (5) 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 20:42:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.05_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/SRX10828617/SRX10828617.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:42:38: 9000000 INFO @ Sat, 15 Jan 2022 20:42:40: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:42:45: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:42:45: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:42:45: #1 total tags in treatment: 4710849 INFO @ Sat, 15 Jan 2022 20:42:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:42:45: #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 20:42:45: #1 tags after filtering in treatment: 3190647 INFO @ Sat, 15 Jan 2022 20:42:45: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 20:42:45: #1 finished! INFO @ Sat, 15 Jan 2022 20:42:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:42:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:42:45: #2 number of paired peaks: 5 WARNING @ Sat, 15 Jan 2022 20:42:45: Too few paired peaks (5) 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 20:42:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.10_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/SRX10828617/SRX10828617.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:42:50: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:43:00: 8000000 INFO @ Sat, 15 Jan 2022 20:43:11: 9000000 INFO @ Sat, 15 Jan 2022 20:43:19: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:43:19: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:43:19: #1 total tags in treatment: 4710849 INFO @ Sat, 15 Jan 2022 20:43:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:43:19: #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 20:43:20: #1 tags after filtering in treatment: 3190647 INFO @ Sat, 15 Jan 2022 20:43:20: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 20:43:20: #1 finished! INFO @ Sat, 15 Jan 2022 20:43:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:43:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:43:20: #2 number of paired peaks: 5 WARNING @ Sat, 15 Jan 2022 20:43:20: Too few paired peaks (5) 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 20:43:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.20_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/SRX10828617/SRX10828617.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828617/SRX10828617.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling