Job ID = 14520475 SRX = SRX3659055 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 11565633 spots for SRR6682752/SRR6682752.sra Written 11565633 spots for SRR6682752/SRR6682752.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: 00:10:59 11565633 reads; of these: 11565633 (100.00%) were paired; of these: 1096015 (9.48%) aligned concordantly 0 times 9681207 (83.71%) aligned concordantly exactly 1 time 788411 (6.82%) aligned concordantly >1 times ---- 1096015 pairs aligned concordantly 0 times; of these: 699834 (63.85%) aligned discordantly 1 time ---- 396181 pairs aligned 0 times concordantly or discordantly; of these: 792362 mates make up the pairs; of these: 585260 (73.86%) aligned 0 times 90531 (11.43%) aligned exactly 1 time 116571 (14.71%) aligned >1 times 97.47% overall alignment rate Time searching: 00:10:59 Overall time: 00:10:59 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 12 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] 1409572 / 11070956 = 0.1273 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 19:32:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.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 19:32:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:32:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:32:49: 1000000 INFO @ Sat, 15 Jan 2022 19:32:54: 2000000 INFO @ Sat, 15 Jan 2022 19:33:00: 3000000 INFO @ Sat, 15 Jan 2022 19:33:05: 4000000 INFO @ Sat, 15 Jan 2022 19:33:10: 5000000 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 19:33:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.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 19:33:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:33:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:33:15: 6000000 INFO @ Sat, 15 Jan 2022 19:33:19: 1000000 INFO @ Sat, 15 Jan 2022 19:33:21: 7000000 INFO @ Sat, 15 Jan 2022 19:33:25: 2000000 INFO @ Sat, 15 Jan 2022 19:33:26: 8000000 INFO @ Sat, 15 Jan 2022 19:33:30: 3000000 INFO @ Sat, 15 Jan 2022 19:33:32: 9000000 INFO @ Sat, 15 Jan 2022 19:33:36: 4000000 INFO @ Sat, 15 Jan 2022 19:33:37: 10000000 INFO @ Sat, 15 Jan 2022 19:33:41: 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 19:33:43: 11000000 INFO @ Sat, 15 Jan 2022 19:33:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.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 19:33:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:33:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:33:47: 6000000 INFO @ Sat, 15 Jan 2022 19:33:49: 12000000 INFO @ Sat, 15 Jan 2022 19:33:50: 1000000 INFO @ Sat, 15 Jan 2022 19:33:52: 7000000 INFO @ Sat, 15 Jan 2022 19:33:54: 13000000 INFO @ Sat, 15 Jan 2022 19:33:57: 2000000 INFO @ Sat, 15 Jan 2022 19:33:58: 8000000 INFO @ Sat, 15 Jan 2022 19:34:00: 14000000 INFO @ Sat, 15 Jan 2022 19:34:04: 9000000 INFO @ Sat, 15 Jan 2022 19:34:04: 3000000 INFO @ Sat, 15 Jan 2022 19:34:06: 15000000 INFO @ Sat, 15 Jan 2022 19:34:09: 10000000 INFO @ Sat, 15 Jan 2022 19:34:11: 4000000 INFO @ Sat, 15 Jan 2022 19:34:11: 16000000 INFO @ Sat, 15 Jan 2022 19:34:15: 11000000 INFO @ Sat, 15 Jan 2022 19:34:17: 17000000 INFO @ Sat, 15 Jan 2022 19:34:17: 5000000 INFO @ Sat, 15 Jan 2022 19:34:21: 12000000 INFO @ Sat, 15 Jan 2022 19:34:23: 18000000 INFO @ Sat, 15 Jan 2022 19:34:24: 6000000 INFO @ Sat, 15 Jan 2022 19:34:26: 13000000 INFO @ Sat, 15 Jan 2022 19:34:29: 19000000 INFO @ Sat, 15 Jan 2022 19:34:31: 7000000 INFO @ Sat, 15 Jan 2022 19:34:32: 14000000 INFO @ Sat, 15 Jan 2022 19:34:33: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:34:33: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:34:33: #1 total tags in treatment: 9116162 INFO @ Sat, 15 Jan 2022 19:34:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:34:33: #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 19:34:33: #1 tags after filtering in treatment: 5148688 INFO @ Sat, 15 Jan 2022 19:34:33: #1 Redundant rate of treatment: 0.44 INFO @ Sat, 15 Jan 2022 19:34:33: #1 finished! INFO @ Sat, 15 Jan 2022 19:34:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:34:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:34:33: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:34:33: Too few paired peaks (0) 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 19:34:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.05_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/SRX3659055/SRX3659055.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:34:37: 8000000 INFO @ Sat, 15 Jan 2022 19:34:38: 15000000 INFO @ Sat, 15 Jan 2022 19:34:44: 16000000 INFO @ Sat, 15 Jan 2022 19:34:44: 9000000 INFO @ Sat, 15 Jan 2022 19:34:50: 17000000 INFO @ Sat, 15 Jan 2022 19:34:51: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:34:55: 18000000 INFO @ Sat, 15 Jan 2022 19:34:58: 11000000 INFO @ Sat, 15 Jan 2022 19:35:01: 19000000 INFO @ Sat, 15 Jan 2022 19:35:04: 12000000 INFO @ Sat, 15 Jan 2022 19:35:05: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:35:05: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:35:05: #1 total tags in treatment: 9116162 INFO @ Sat, 15 Jan 2022 19:35:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:35:05: #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 19:35:05: #1 tags after filtering in treatment: 5148688 INFO @ Sat, 15 Jan 2022 19:35:05: #1 Redundant rate of treatment: 0.44 INFO @ Sat, 15 Jan 2022 19:35:05: #1 finished! INFO @ Sat, 15 Jan 2022 19:35:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:35:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:35:06: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:35:06: Too few paired peaks (0) 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 19:35:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.10_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/SRX3659055/SRX3659055.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:35:11: 13000000 INFO @ Sat, 15 Jan 2022 19:35:17: 14000000 INFO @ Sat, 15 Jan 2022 19:35:24: 15000000 INFO @ Sat, 15 Jan 2022 19:35:30: 16000000 INFO @ Sat, 15 Jan 2022 19:35:37: 17000000 INFO @ Sat, 15 Jan 2022 19:35:43: 18000000 INFO @ Sat, 15 Jan 2022 19:35:50: 19000000 INFO @ Sat, 15 Jan 2022 19:35:55: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:35:55: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:35:55: #1 total tags in treatment: 9116162 INFO @ Sat, 15 Jan 2022 19:35:55: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:35:55: #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 19:35:55: #1 tags after filtering in treatment: 5148688 INFO @ Sat, 15 Jan 2022 19:35:55: #1 Redundant rate of treatment: 0.44 INFO @ Sat, 15 Jan 2022 19:35:55: #1 finished! INFO @ Sat, 15 Jan 2022 19:35:55: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:35:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:35:55: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:35:55: Too few paired peaks (0) 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 19:35:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.20_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/SRX3659055/SRX3659055.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659055/SRX3659055.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling