Job ID = 14521970 SRX = SRX7756559 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12728461 spots for SRR11119561/SRR11119561.sra Written 12728461 spots for SRR11119561/SRR11119561.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: 00:20:36 12728461 reads; of these: 12728461 (100.00%) were paired; of these: 2370747 (18.63%) aligned concordantly 0 times 9650651 (75.82%) aligned concordantly exactly 1 time 707063 (5.55%) aligned concordantly >1 times ---- 2370747 pairs aligned concordantly 0 times; of these: 978167 (41.26%) aligned discordantly 1 time ---- 1392580 pairs aligned 0 times concordantly or discordantly; of these: 2785160 mates make up the pairs; of these: 2397907 (86.10%) aligned 0 times 200390 (7.19%) aligned exactly 1 time 186863 (6.71%) aligned >1 times 90.58% overall alignment rate Time searching: 00:20:36 Overall time: 00:20:36 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 20 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] 1907270 / 11320787 = 0.1685 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 22:32:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.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 22:32:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:32:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:32:10: 1000000 INFO @ Sat, 15 Jan 2022 22:32:17: 2000000 INFO @ Sat, 15 Jan 2022 22:32:25: 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 22:32:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.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 22:32:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:32:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:32:33: 4000000 INFO @ Sat, 15 Jan 2022 22:32:41: 5000000 INFO @ Sat, 15 Jan 2022 22:32:41: 1000000 INFO @ Sat, 15 Jan 2022 22:32:49: 6000000 INFO @ Sat, 15 Jan 2022 22:32:50: 2000000 INFO @ Sat, 15 Jan 2022 22:32:58: 7000000 INFO @ Sat, 15 Jan 2022 22:32:58: 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 22:33:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.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 22:33:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:33:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:33:06: 8000000 INFO @ Sat, 15 Jan 2022 22:33:07: 4000000 INFO @ Sat, 15 Jan 2022 22:33:12: 1000000 INFO @ Sat, 15 Jan 2022 22:33:15: 9000000 INFO @ Sat, 15 Jan 2022 22:33:16: 5000000 INFO @ Sat, 15 Jan 2022 22:33:22: 2000000 INFO @ Sat, 15 Jan 2022 22:33:25: 10000000 INFO @ Sat, 15 Jan 2022 22:33:26: 6000000 INFO @ Sat, 15 Jan 2022 22:33:31: 3000000 INFO @ Sat, 15 Jan 2022 22:33:34: 11000000 INFO @ Sat, 15 Jan 2022 22:33:36: 7000000 INFO @ Sat, 15 Jan 2022 22:33:41: 4000000 INFO @ Sat, 15 Jan 2022 22:33:44: 12000000 INFO @ Sat, 15 Jan 2022 22:33:46: 8000000 INFO @ Sat, 15 Jan 2022 22:33:51: 5000000 INFO @ Sat, 15 Jan 2022 22:33:55: 13000000 INFO @ Sat, 15 Jan 2022 22:33:55: 9000000 INFO @ Sat, 15 Jan 2022 22:34:01: 6000000 INFO @ Sat, 15 Jan 2022 22:34:05: 14000000 INFO @ Sat, 15 Jan 2022 22:34:05: 10000000 INFO @ Sat, 15 Jan 2022 22:34:12: 7000000 INFO @ Sat, 15 Jan 2022 22:34:15: 11000000 INFO @ Sat, 15 Jan 2022 22:34:16: 15000000 INFO @ Sat, 15 Jan 2022 22:34:23: 8000000 INFO @ Sat, 15 Jan 2022 22:34:26: 12000000 INFO @ Sat, 15 Jan 2022 22:34:26: 16000000 INFO @ Sat, 15 Jan 2022 22:34:34: 9000000 INFO @ Sat, 15 Jan 2022 22:34:36: 13000000 INFO @ Sat, 15 Jan 2022 22:34:36: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:34:44: 10000000 INFO @ Sat, 15 Jan 2022 22:34:46: 14000000 INFO @ Sat, 15 Jan 2022 22:34:46: 18000000 INFO @ Sat, 15 Jan 2022 22:34:54: 11000000 INFO @ Sat, 15 Jan 2022 22:34:57: 19000000 INFO @ Sat, 15 Jan 2022 22:34:57: 15000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:34:59: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 22:34:59: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 22:34:59: #1 total tags in treatment: 8582367 INFO @ Sat, 15 Jan 2022 22:34:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:34:59: #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 22:34:59: #1 tags after filtering in treatment: 6237364 INFO @ Sat, 15 Jan 2022 22:34:59: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 22:34:59: #1 finished! INFO @ Sat, 15 Jan 2022 22:34:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:34:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:35:00: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:35:00: 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 22:35:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.05_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/SRX7756559/SRX7756559.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:35:04: 12000000 INFO @ Sat, 15 Jan 2022 22:35:07: 16000000 INFO @ Sat, 15 Jan 2022 22:35:13: 13000000 INFO @ Sat, 15 Jan 2022 22:35:16: 17000000 INFO @ Sat, 15 Jan 2022 22:35:22: 14000000 INFO @ Sat, 15 Jan 2022 22:35:25: 18000000 INFO @ Sat, 15 Jan 2022 22:35:31: 15000000 INFO @ Sat, 15 Jan 2022 22:35:34: 19000000 INFO @ Sat, 15 Jan 2022 22:35:37: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 22:35:37: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 22:35:37: #1 total tags in treatment: 8582367 INFO @ Sat, 15 Jan 2022 22:35:37: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:35:37: #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 22:35:37: #1 tags after filtering in treatment: 6237364 INFO @ Sat, 15 Jan 2022 22:35:37: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 22:35:37: #1 finished! INFO @ Sat, 15 Jan 2022 22:35:37: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:35:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:35:37: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:35:37: 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 22:35:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.10_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/SRX7756559/SRX7756559.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:35:41: 16000000 INFO @ Sat, 15 Jan 2022 22:35:51: 17000000 INFO @ Sat, 15 Jan 2022 22:36:01: 18000000 INFO @ Sat, 15 Jan 2022 22:36:11: 19000000 INFO @ Sat, 15 Jan 2022 22:36:14: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 22:36:14: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 22:36:14: #1 total tags in treatment: 8582367 INFO @ Sat, 15 Jan 2022 22:36:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:36:14: #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 22:36:14: #1 tags after filtering in treatment: 6237364 INFO @ Sat, 15 Jan 2022 22:36:14: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 22:36:14: #1 finished! INFO @ Sat, 15 Jan 2022 22:36:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:36:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:36:14: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:36:14: 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 22:36:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.20_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/SRX7756559/SRX7756559.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756559/SRX7756559.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling