Job ID = 12531664 SRX = SRX4555037 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17883137 spots for SRR7696733/SRR7696733.sra Written 17883137 spots for SRR7696733/SRR7696733.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: 00:21:11 17883137 reads; of these: 17883137 (100.00%) were paired; of these: 1173511 (6.56%) aligned concordantly 0 times 7934037 (44.37%) aligned concordantly exactly 1 time 8775589 (49.07%) aligned concordantly >1 times ---- 1173511 pairs aligned concordantly 0 times; of these: 69948 (5.96%) aligned discordantly 1 time ---- 1103563 pairs aligned 0 times concordantly or discordantly; of these: 2207126 mates make up the pairs; of these: 1744910 (79.06%) aligned 0 times 227839 (10.32%) aligned exactly 1 time 234377 (10.62%) aligned >1 times 95.12% overall alignment rate Time searching: 00:21:11 Overall time: 00:21:11 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 24 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] 3882906 / 8215119 = 0.4727 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:31:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.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, 17 Apr 2021 09:31:35: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:31:35: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:31:41: 1000000 INFO @ Sat, 17 Apr 2021 09:31:47: 2000000 INFO @ Sat, 17 Apr 2021 09:31:53: 3000000 INFO @ Sat, 17 Apr 2021 09:31:59: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:32:05: 5000000 INFO @ Sat, 17 Apr 2021 09:32:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.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, 17 Apr 2021 09:32:05: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:32:05: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:32:11: 6000000 INFO @ Sat, 17 Apr 2021 09:32:11: 1000000 INFO @ Sat, 17 Apr 2021 09:32:17: 7000000 INFO @ Sat, 17 Apr 2021 09:32:18: 2000000 INFO @ Sat, 17 Apr 2021 09:32:24: 8000000 INFO @ Sat, 17 Apr 2021 09:32:24: 3000000 INFO @ Sat, 17 Apr 2021 09:32:31: 9000000 INFO @ Sat, 17 Apr 2021 09:32:31: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:32:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.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, 17 Apr 2021 09:32:35: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:32:35: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:32:37: 5000000 INFO @ Sat, 17 Apr 2021 09:32:37: 10000000 INFO @ Sat, 17 Apr 2021 09:32:41: 1000000 INFO @ Sat, 17 Apr 2021 09:32:43: 11000000 INFO @ Sat, 17 Apr 2021 09:32:44: 6000000 INFO @ Sat, 17 Apr 2021 09:32:48: 2000000 INFO @ Sat, 17 Apr 2021 09:32:49: 12000000 INFO @ Sat, 17 Apr 2021 09:32:50: 7000000 INFO @ Sat, 17 Apr 2021 09:32:54: 3000000 INFO @ Sat, 17 Apr 2021 09:32:55: 13000000 INFO @ Sat, 17 Apr 2021 09:32:57: 8000000 INFO @ Sat, 17 Apr 2021 09:33:01: 4000000 INFO @ Sat, 17 Apr 2021 09:33:01: 14000000 INFO @ Sat, 17 Apr 2021 09:33:03: 9000000 INFO @ Sat, 17 Apr 2021 09:33:07: 5000000 INFO @ Sat, 17 Apr 2021 09:33:08: 15000000 INFO @ Sat, 17 Apr 2021 09:33:10: 10000000 INFO @ Sat, 17 Apr 2021 09:33:14: 6000000 INFO @ Sat, 17 Apr 2021 09:33:14: 16000000 INFO @ Sat, 17 Apr 2021 09:33:16: 11000000 INFO @ Sat, 17 Apr 2021 09:33:20: 17000000 INFO @ Sat, 17 Apr 2021 09:33:20: 7000000 INFO @ Sat, 17 Apr 2021 09:33:22: 12000000 INFO @ Sat, 17 Apr 2021 09:33:26: 18000000 INFO @ Sat, 17 Apr 2021 09:33:27: 8000000 INFO @ Sat, 17 Apr 2021 09:33:28: 13000000 INFO @ Sat, 17 Apr 2021 09:33:32: 19000000 INFO @ Sat, 17 Apr 2021 09:33:33: 9000000 INFO @ Sat, 17 Apr 2021 09:33:34: 14000000 INFO @ Sat, 17 Apr 2021 09:33:38: 20000000 INFO @ Sat, 17 Apr 2021 09:33:40: 10000000 INFO @ Sat, 17 Apr 2021 09:33:41: 15000000 INFO @ Sat, 17 Apr 2021 09:33:44: 21000000 INFO @ Sat, 17 Apr 2021 09:33:46: 11000000 INFO @ Sat, 17 Apr 2021 09:33:47: 16000000 INFO @ Sat, 17 Apr 2021 09:33:51: 22000000 INFO @ Sat, 17 Apr 2021 09:33:52: 12000000 INFO @ Sat, 17 Apr 2021 09:33:53: 17000000 INFO @ Sat, 17 Apr 2021 09:33:58: 23000000 INFO @ Sat, 17 Apr 2021 09:33:58: 13000000 INFO @ Sat, 17 Apr 2021 09:33:59: 18000000 INFO @ Sat, 17 Apr 2021 09:34:04: 14000000 INFO @ Sat, 17 Apr 2021 09:34:04: 24000000 INFO @ Sat, 17 Apr 2021 09:34:05: 19000000 INFO @ Sat, 17 Apr 2021 09:34:10: 15000000 INFO @ Sat, 17 Apr 2021 09:34:11: 25000000 INFO @ Sat, 17 Apr 2021 09:34:11: 20000000 INFO @ Sat, 17 Apr 2021 09:34:16: 16000000 INFO @ Sat, 17 Apr 2021 09:34:17: 21000000 INFO @ Sat, 17 Apr 2021 09:34:18: 26000000 INFO @ Sat, 17 Apr 2021 09:34:20: #1 tag size is determined as 83 bps INFO @ Sat, 17 Apr 2021 09:34:20: #1 tag size = 83 INFO @ Sat, 17 Apr 2021 09:34:20: #1 total tags in treatment: 12831821 INFO @ Sat, 17 Apr 2021 09:34:20: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:34:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:34:20: #1 tags after filtering in treatment: 2996930 INFO @ Sat, 17 Apr 2021 09:34:20: #1 Redundant rate of treatment: 0.77 INFO @ Sat, 17 Apr 2021 09:34:20: #1 finished! INFO @ Sat, 17 Apr 2021 09:34:20: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:34:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:34:20: #2 number of paired peaks: 42 WARNING @ Sat, 17 Apr 2021 09:34:20: Too few paired peaks (42) 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, 17 Apr 2021 09:34:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.05_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/SRX4555037/SRX4555037.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:34:22: 17000000 INFO @ Sat, 17 Apr 2021 09:34:24: 22000000 INFO @ Sat, 17 Apr 2021 09:34:28: 18000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:34:30: 23000000 INFO @ Sat, 17 Apr 2021 09:34:34: 19000000 INFO @ Sat, 17 Apr 2021 09:34:37: 24000000 INFO @ Sat, 17 Apr 2021 09:34:40: 20000000 INFO @ Sat, 17 Apr 2021 09:34:43: 25000000 INFO @ Sat, 17 Apr 2021 09:34:47: 21000000 INFO @ Sat, 17 Apr 2021 09:34:50: 26000000 INFO @ Sat, 17 Apr 2021 09:34:51: #1 tag size is determined as 83 bps INFO @ Sat, 17 Apr 2021 09:34:51: #1 tag size = 83 INFO @ Sat, 17 Apr 2021 09:34:51: #1 total tags in treatment: 12831821 INFO @ Sat, 17 Apr 2021 09:34:51: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:34:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:34:52: #1 tags after filtering in treatment: 2996930 INFO @ Sat, 17 Apr 2021 09:34:52: #1 Redundant rate of treatment: 0.77 INFO @ Sat, 17 Apr 2021 09:34:52: #1 finished! INFO @ Sat, 17 Apr 2021 09:34:52: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:34:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:34:52: #2 number of paired peaks: 42 WARNING @ Sat, 17 Apr 2021 09:34:52: Too few paired peaks (42) 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, 17 Apr 2021 09:34:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.10_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/SRX4555037/SRX4555037.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:34:53: 22000000 INFO @ Sat, 17 Apr 2021 09:34:59: 23000000 INFO @ Sat, 17 Apr 2021 09:35:06: 24000000 INFO @ Sat, 17 Apr 2021 09:35:12: 25000000 INFO @ Sat, 17 Apr 2021 09:35:18: 26000000 INFO @ Sat, 17 Apr 2021 09:35:20: #1 tag size is determined as 83 bps INFO @ Sat, 17 Apr 2021 09:35:20: #1 tag size = 83 INFO @ Sat, 17 Apr 2021 09:35:20: #1 total tags in treatment: 12831821 INFO @ Sat, 17 Apr 2021 09:35:20: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:35:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:35:20: #1 tags after filtering in treatment: 2996930 INFO @ Sat, 17 Apr 2021 09:35:20: #1 Redundant rate of treatment: 0.77 INFO @ Sat, 17 Apr 2021 09:35:20: #1 finished! INFO @ Sat, 17 Apr 2021 09:35:20: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:35:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:35:20: #2 number of paired peaks: 42 WARNING @ Sat, 17 Apr 2021 09:35:20: Too few paired peaks (42) 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, 17 Apr 2021 09:35:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.20_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/SRX4555037/SRX4555037.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555037/SRX4555037.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling