Job ID = 12531640 SRX = SRX4555020 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17306287 spots for SRR7696712/SRR7696712.sra Written 17306287 spots for SRR7696712/SRR7696712.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: 00:20:53 17306287 reads; of these: 17306287 (100.00%) were paired; of these: 958233 (5.54%) aligned concordantly 0 times 8852427 (51.15%) aligned concordantly exactly 1 time 7495627 (43.31%) aligned concordantly >1 times ---- 958233 pairs aligned concordantly 0 times; of these: 67234 (7.02%) aligned discordantly 1 time ---- 890999 pairs aligned 0 times concordantly or discordantly; of these: 1781998 mates make up the pairs; of these: 1394785 (78.27%) aligned 0 times 210401 (11.81%) aligned exactly 1 time 176812 (9.92%) aligned >1 times 95.97% overall alignment rate Time searching: 00:20:53 Overall time: 00:20:53 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] 2956153 / 7312710 = 0.4042 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 09:20:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.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 09:20:26: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:20:26: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:20:32: 1000000 INFO @ Sat, 17 Apr 2021 09:20:38: 2000000 INFO @ Sat, 17 Apr 2021 09:20:45: 3000000 INFO @ Sat, 17 Apr 2021 09:20:51: 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 09:20:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.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 09:20:56: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:20:56: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:20:57: 5000000 INFO @ Sat, 17 Apr 2021 09:21:04: 6000000 INFO @ Sat, 17 Apr 2021 09:21:09: 1000000 INFO @ Sat, 17 Apr 2021 09:21:11: 7000000 INFO @ Sat, 17 Apr 2021 09:21:19: 8000000 INFO @ Sat, 17 Apr 2021 09:21:23: 2000000 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 09:21:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.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 09:21:26: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:21:26: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:21:26: 9000000 INFO @ Sat, 17 Apr 2021 09:21:33: 1000000 INFO @ Sat, 17 Apr 2021 09:21:33: 10000000 INFO @ Sat, 17 Apr 2021 09:21:37: 3000000 INFO @ Sat, 17 Apr 2021 09:21:40: 2000000 INFO @ Sat, 17 Apr 2021 09:21:40: 11000000 INFO @ Sat, 17 Apr 2021 09:21:47: 3000000 INFO @ Sat, 17 Apr 2021 09:21:48: 12000000 INFO @ Sat, 17 Apr 2021 09:21:50: 4000000 INFO @ Sat, 17 Apr 2021 09:21:54: 4000000 INFO @ Sat, 17 Apr 2021 09:21:54: 13000000 INFO @ Sat, 17 Apr 2021 09:22:00: 5000000 INFO @ Sat, 17 Apr 2021 09:22:01: 5000000 INFO @ Sat, 17 Apr 2021 09:22:01: 14000000 INFO @ Sat, 17 Apr 2021 09:22:08: 15000000 INFO @ Sat, 17 Apr 2021 09:22:10: 6000000 INFO @ Sat, 17 Apr 2021 09:22:13: 6000000 INFO @ Sat, 17 Apr 2021 09:22:15: 16000000 INFO @ Sat, 17 Apr 2021 09:22:17: 7000000 INFO @ Sat, 17 Apr 2021 09:22:22: 17000000 INFO @ Sat, 17 Apr 2021 09:22:24: 8000000 INFO @ Sat, 17 Apr 2021 09:22:29: 18000000 INFO @ Sat, 17 Apr 2021 09:22:29: 7000000 INFO @ Sat, 17 Apr 2021 09:22:32: 9000000 INFO @ Sat, 17 Apr 2021 09:22:36: 19000000 INFO @ Sat, 17 Apr 2021 09:22:39: 10000000 INFO @ Sat, 17 Apr 2021 09:22:42: 20000000 INFO @ Sat, 17 Apr 2021 09:22:44: 8000000 INFO @ Sat, 17 Apr 2021 09:22:47: 11000000 INFO @ Sat, 17 Apr 2021 09:22:50: 21000000 INFO @ Sat, 17 Apr 2021 09:22:54: 12000000 INFO @ Sat, 17 Apr 2021 09:22:57: 22000000 INFO @ Sat, 17 Apr 2021 09:22:58: 9000000 INFO @ Sat, 17 Apr 2021 09:23:01: 13000000 INFO @ Sat, 17 Apr 2021 09:23:05: 23000000 INFO @ Sat, 17 Apr 2021 09:23:08: 14000000 INFO @ Sat, 17 Apr 2021 09:23:10: 10000000 INFO @ Sat, 17 Apr 2021 09:23:12: 24000000 INFO @ Sat, 17 Apr 2021 09:23:15: 15000000 INFO @ Sat, 17 Apr 2021 09:23:20: 25000000 INFO @ Sat, 17 Apr 2021 09:23:22: 16000000 INFO @ Sat, 17 Apr 2021 09:23:25: 11000000 INFO @ Sat, 17 Apr 2021 09:23:27: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:23:29: 17000000 INFO @ Sat, 17 Apr 2021 09:23:34: 27000000 INFO @ Sat, 17 Apr 2021 09:23:36: 18000000 INFO @ Sat, 17 Apr 2021 09:23:37: #1 tag size is determined as 85 bps INFO @ Sat, 17 Apr 2021 09:23:37: #1 tag size = 85 INFO @ Sat, 17 Apr 2021 09:23:37: #1 total tags in treatment: 13396069 INFO @ Sat, 17 Apr 2021 09:23:37: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:23:37: #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 09:23:37: #1 tags after filtering in treatment: 3439846 INFO @ Sat, 17 Apr 2021 09:23:37: #1 Redundant rate of treatment: 0.74 INFO @ Sat, 17 Apr 2021 09:23:37: #1 finished! INFO @ Sat, 17 Apr 2021 09:23:37: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:23:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:23:38: #2 number of paired peaks: 29 WARNING @ Sat, 17 Apr 2021 09:23:38: Too few paired peaks (29) 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 09:23:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 6 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:23:38: 12000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:23:43: 19000000 INFO @ Sat, 17 Apr 2021 09:23:50: 20000000 INFO @ Sat, 17 Apr 2021 09:23:52: 13000000 INFO @ Sat, 17 Apr 2021 09:23:57: 21000000 INFO @ Sat, 17 Apr 2021 09:24:04: 14000000 INFO @ Sat, 17 Apr 2021 09:24:04: 22000000 INFO @ Sat, 17 Apr 2021 09:24:12: 23000000 INFO @ Sat, 17 Apr 2021 09:24:18: 15000000 INFO @ Sat, 17 Apr 2021 09:24:19: 24000000 INFO @ Sat, 17 Apr 2021 09:24:27: 25000000 INFO @ Sat, 17 Apr 2021 09:24:31: 16000000 INFO @ Sat, 17 Apr 2021 09:24:34: 26000000 INFO @ Sat, 17 Apr 2021 09:24:41: 27000000 INFO @ Sat, 17 Apr 2021 09:24:44: #1 tag size is determined as 85 bps INFO @ Sat, 17 Apr 2021 09:24:44: #1 tag size = 85 INFO @ Sat, 17 Apr 2021 09:24:44: #1 total tags in treatment: 13396069 INFO @ Sat, 17 Apr 2021 09:24:44: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:24:44: #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 09:24:44: #1 tags after filtering in treatment: 3439846 INFO @ Sat, 17 Apr 2021 09:24:44: #1 Redundant rate of treatment: 0.74 INFO @ Sat, 17 Apr 2021 09:24:44: #1 finished! INFO @ Sat, 17 Apr 2021 09:24:44: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:24:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:24:44: #2 number of paired peaks: 29 WARNING @ Sat, 17 Apr 2021 09:24:44: Too few paired peaks (29) 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 09:24:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.20_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/SRX4555020/SRX4555020.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:24:46: 17000000 INFO @ Sat, 17 Apr 2021 09:24:58: 18000000 INFO @ Sat, 17 Apr 2021 09:25:09: 19000000 INFO @ Sat, 17 Apr 2021 09:25:20: 20000000 INFO @ Sat, 17 Apr 2021 09:25:32: 21000000 INFO @ Sat, 17 Apr 2021 09:25:46: 22000000 INFO @ Sat, 17 Apr 2021 09:26:00: 23000000 INFO @ Sat, 17 Apr 2021 09:26:11: 24000000 INFO @ Sat, 17 Apr 2021 09:26:24: 25000000 INFO @ Sat, 17 Apr 2021 09:26:39: 26000000 INFO @ Sat, 17 Apr 2021 09:26:54: 27000000 INFO @ Sat, 17 Apr 2021 09:26:58: #1 tag size is determined as 85 bps INFO @ Sat, 17 Apr 2021 09:26:58: #1 tag size = 85 INFO @ Sat, 17 Apr 2021 09:26:58: #1 total tags in treatment: 13396069 INFO @ Sat, 17 Apr 2021 09:26:58: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:26:58: #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 09:26:58: #1 tags after filtering in treatment: 3439846 INFO @ Sat, 17 Apr 2021 09:26:58: #1 Redundant rate of treatment: 0.74 INFO @ Sat, 17 Apr 2021 09:26:58: #1 finished! INFO @ Sat, 17 Apr 2021 09:26:58: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:26:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:26:58: #2 number of paired peaks: 29 WARNING @ Sat, 17 Apr 2021 09:26:58: Too few paired peaks (29) 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 09:26:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.10_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/SRX4555020/SRX4555020.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555020/SRX4555020.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling