Job ID = 14520854 SRX = SRX8245423 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8597272 spots for SRR11684634/SRR11684634.sra Written 8597272 spots for SRR11684634/SRR11684634.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: 00:05:17 8597272 reads; of these: 8597272 (100.00%) were paired; of these: 4075342 (47.40%) aligned concordantly 0 times 4021963 (46.78%) aligned concordantly exactly 1 time 499967 (5.82%) aligned concordantly >1 times ---- 4075342 pairs aligned concordantly 0 times; of these: 33974 (0.83%) aligned discordantly 1 time ---- 4041368 pairs aligned 0 times concordantly or discordantly; of these: 8082736 mates make up the pairs; of these: 4381515 (54.21%) aligned 0 times 3265492 (40.40%) aligned exactly 1 time 435729 (5.39%) aligned >1 times 74.52% overall alignment rate Time searching: 00:05:17 Overall time: 00:05:17 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] 33551 / 4555146 = 0.0074 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 20:12:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.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 20:12:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:12:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:12:05: 1000000 INFO @ Sat, 15 Jan 2022 20:12:10: 2000000 INFO @ Sat, 15 Jan 2022 20:12:15: 3000000 INFO @ Sat, 15 Jan 2022 20:12:19: 4000000 INFO @ Sat, 15 Jan 2022 20:12:24: 5000000 INFO @ Sat, 15 Jan 2022 20:12:29: 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 20:12:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.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 20:12:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:12:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:12:34: 7000000 INFO @ Sat, 15 Jan 2022 20:12:35: 1000000 INFO @ Sat, 15 Jan 2022 20:12:39: 8000000 INFO @ Sat, 15 Jan 2022 20:12:40: 2000000 INFO @ Sat, 15 Jan 2022 20:12:44: 9000000 INFO @ Sat, 15 Jan 2022 20:12:45: 3000000 INFO @ Sat, 15 Jan 2022 20:12:49: 10000000 INFO @ Sat, 15 Jan 2022 20:12:50: 4000000 INFO @ Sat, 15 Jan 2022 20:12:54: 11000000 INFO @ Sat, 15 Jan 2022 20:12:55: 5000000 INFO @ Sat, 15 Jan 2022 20:12:59: 12000000 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 20:13:00: 6000000 INFO @ Sat, 15 Jan 2022 20:13:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.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 20:13:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:13:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:13:02: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:13:02: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:13:02: #1 total tags in treatment: 4488405 INFO @ Sat, 15 Jan 2022 20:13:02: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:13:02: #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 20:13:02: #1 tags after filtering in treatment: 3751330 INFO @ Sat, 15 Jan 2022 20:13:02: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:13:02: #1 finished! INFO @ Sat, 15 Jan 2022 20:13:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:13:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:13:03: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:13:03: Too few paired peaks (28) 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 20:13:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.05_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/SRX8245423/SRX8245423.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:13:05: 7000000 INFO @ Sat, 15 Jan 2022 20:13:06: 1000000 INFO @ Sat, 15 Jan 2022 20:13:10: 8000000 INFO @ Sat, 15 Jan 2022 20:13:10: 2000000 INFO @ Sat, 15 Jan 2022 20:13:15: 9000000 INFO @ Sat, 15 Jan 2022 20:13:15: 3000000 INFO @ Sat, 15 Jan 2022 20:13:20: 10000000 INFO @ Sat, 15 Jan 2022 20:13:20: 4000000 INFO @ Sat, 15 Jan 2022 20:13:24: 11000000 INFO @ Sat, 15 Jan 2022 20:13:25: 5000000 INFO @ Sat, 15 Jan 2022 20:13:29: 12000000 INFO @ Sat, 15 Jan 2022 20:13:30: 6000000 INFO @ Sat, 15 Jan 2022 20:13:33: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:13:33: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:13:33: #1 total tags in treatment: 4488405 INFO @ Sat, 15 Jan 2022 20:13:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:13:33: #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 20:13:33: #1 tags after filtering in treatment: 3751330 INFO @ Sat, 15 Jan 2022 20:13:33: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:13:33: #1 finished! INFO @ Sat, 15 Jan 2022 20:13:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:13:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:13:33: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:13:33: Too few paired peaks (28) 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 20:13:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.10_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/SRX8245423/SRX8245423.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:13:35: 7000000 INFO @ Sat, 15 Jan 2022 20:13:40: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:13:44: 9000000 INFO @ Sat, 15 Jan 2022 20:13:49: 10000000 INFO @ Sat, 15 Jan 2022 20:13:54: 11000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:13:59: 12000000 INFO @ Sat, 15 Jan 2022 20:14:02: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:14:02: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:14:02: #1 total tags in treatment: 4488405 INFO @ Sat, 15 Jan 2022 20:14:02: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:14:02: #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 20:14:02: #1 tags after filtering in treatment: 3751330 INFO @ Sat, 15 Jan 2022 20:14:02: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:14:02: #1 finished! INFO @ Sat, 15 Jan 2022 20:14:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:14:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:14:03: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:14:03: Too few paired peaks (28) 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 20:14:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.20_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/SRX8245423/SRX8245423.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245423/SRX8245423.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling