Job ID = 12531622 SRX = SRX4555007 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15945609 spots for SRR7696694/SRR7696694.sra Written 15945609 spots for SRR7696694/SRR7696694.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: 00:25:04 15945609 reads; of these: 15945609 (100.00%) were paired; of these: 959239 (6.02%) aligned concordantly 0 times 7264781 (45.56%) aligned concordantly exactly 1 time 7721589 (48.42%) aligned concordantly >1 times ---- 959239 pairs aligned concordantly 0 times; of these: 70319 (7.33%) aligned discordantly 1 time ---- 888920 pairs aligned 0 times concordantly or discordantly; of these: 1777840 mates make up the pairs; of these: 1377374 (77.47%) aligned 0 times 189835 (10.68%) aligned exactly 1 time 210631 (11.85%) aligned >1 times 95.68% overall alignment rate Time searching: 00:25:05 Overall time: 00:25:05 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] 3132319 / 7105212 = 0.4408 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 09:17:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.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 09:17:55: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:17:55: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:18:07: 1000000 INFO @ Sat, 17 Apr 2021 09:18:18: 2000000 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 09:18:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.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 09:18:25: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:18:25: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:18:29: 3000000 INFO @ Sat, 17 Apr 2021 09:18:36: 1000000 INFO @ Sat, 17 Apr 2021 09:18:40: 4000000 INFO @ Sat, 17 Apr 2021 09:18:48: 2000000 INFO @ Sat, 17 Apr 2021 09:18:52: 5000000 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 09:18:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.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 09:18:55: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:18:55: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:19:00: 3000000 INFO @ Sat, 17 Apr 2021 09:19:04: 6000000 INFO @ Sat, 17 Apr 2021 09:19:08: 1000000 INFO @ Sat, 17 Apr 2021 09:19:13: 4000000 INFO @ Sat, 17 Apr 2021 09:19:17: 7000000 INFO @ Sat, 17 Apr 2021 09:19:21: 2000000 INFO @ Sat, 17 Apr 2021 09:19:26: 5000000 INFO @ Sat, 17 Apr 2021 09:19:30: 8000000 INFO @ Sat, 17 Apr 2021 09:19:33: 3000000 INFO @ Sat, 17 Apr 2021 09:19:38: 6000000 INFO @ Sat, 17 Apr 2021 09:19:42: 9000000 INFO @ Sat, 17 Apr 2021 09:19:45: 4000000 INFO @ Sat, 17 Apr 2021 09:19:51: 7000000 INFO @ Sat, 17 Apr 2021 09:19:54: 10000000 INFO @ Sat, 17 Apr 2021 09:19:58: 5000000 INFO @ Sat, 17 Apr 2021 09:20:03: 8000000 INFO @ Sat, 17 Apr 2021 09:20:05: 11000000 INFO @ Sat, 17 Apr 2021 09:20:10: 6000000 INFO @ Sat, 17 Apr 2021 09:20:15: 9000000 INFO @ Sat, 17 Apr 2021 09:20:16: 12000000 INFO @ Sat, 17 Apr 2021 09:20:22: 7000000 INFO @ Sat, 17 Apr 2021 09:20:27: 10000000 INFO @ Sat, 17 Apr 2021 09:20:27: 13000000 INFO @ Sat, 17 Apr 2021 09:20:35: 8000000 INFO @ Sat, 17 Apr 2021 09:20:39: 11000000 INFO @ Sat, 17 Apr 2021 09:20:40: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:20:47: 9000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:20:51: 12000000 INFO @ Sat, 17 Apr 2021 09:20:53: 15000000 INFO @ Sat, 17 Apr 2021 09:21:00: 10000000 INFO @ Sat, 17 Apr 2021 09:21:03: 13000000 INFO @ Sat, 17 Apr 2021 09:21:04: 16000000 INFO @ Sat, 17 Apr 2021 09:21:11: 11000000 INFO @ Sat, 17 Apr 2021 09:21:15: 14000000 INFO @ Sat, 17 Apr 2021 09:21:16: 17000000 INFO @ Sat, 17 Apr 2021 09:21:23: 12000000 INFO @ Sat, 17 Apr 2021 09:21:26: 15000000 INFO @ Sat, 17 Apr 2021 09:21:27: 18000000 INFO @ Sat, 17 Apr 2021 09:21:34: 13000000 INFO @ Sat, 17 Apr 2021 09:21:37: 16000000 INFO @ Sat, 17 Apr 2021 09:21:39: 19000000 INFO @ Sat, 17 Apr 2021 09:21:46: 14000000 INFO @ Sat, 17 Apr 2021 09:21:49: 17000000 INFO @ Sat, 17 Apr 2021 09:21:51: 20000000 INFO @ Sat, 17 Apr 2021 09:21:58: 15000000 INFO @ Sat, 17 Apr 2021 09:22:01: 18000000 INFO @ Sat, 17 Apr 2021 09:22:04: 21000000 INFO @ Sat, 17 Apr 2021 09:22:10: 16000000 INFO @ Sat, 17 Apr 2021 09:22:13: 19000000 INFO @ Sat, 17 Apr 2021 09:22:15: 22000000 INFO @ Sat, 17 Apr 2021 09:22:21: 17000000 INFO @ Sat, 17 Apr 2021 09:22:25: 20000000 INFO @ Sat, 17 Apr 2021 09:22:27: 23000000 INFO @ Sat, 17 Apr 2021 09:22:32: 18000000 INFO @ Sat, 17 Apr 2021 09:22:37: 21000000 INFO @ Sat, 17 Apr 2021 09:22:39: 24000000 INFO @ Sat, 17 Apr 2021 09:22:42: #1 tag size is determined as 75 bps INFO @ Sat, 17 Apr 2021 09:22:42: #1 tag size = 75 INFO @ Sat, 17 Apr 2021 09:22:42: #1 total tags in treatment: 11857728 INFO @ Sat, 17 Apr 2021 09:22:42: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:22:42: #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 09:22:42: #1 tags after filtering in treatment: 3139511 INFO @ Sat, 17 Apr 2021 09:22:42: #1 Redundant rate of treatment: 0.74 INFO @ Sat, 17 Apr 2021 09:22:42: #1 finished! INFO @ Sat, 17 Apr 2021 09:22:42: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:22:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:22:42: #2 number of paired peaks: 44 WARNING @ Sat, 17 Apr 2021 09:22:42: Too few paired peaks (44) 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 09:22:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.05_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/SRX4555007/SRX4555007.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:22:43: 19000000 INFO @ Sat, 17 Apr 2021 09:22:47: 22000000 INFO @ Sat, 17 Apr 2021 09:22:54: 20000000 INFO @ Sat, 17 Apr 2021 09:22:58: 23000000 INFO @ Sat, 17 Apr 2021 09:23:05: 21000000 INFO @ Sat, 17 Apr 2021 09:23:09: 24000000 INFO @ Sat, 17 Apr 2021 09:23:11: #1 tag size is determined as 75 bps INFO @ Sat, 17 Apr 2021 09:23:11: #1 tag size = 75 INFO @ Sat, 17 Apr 2021 09:23:11: #1 total tags in treatment: 11857728 INFO @ Sat, 17 Apr 2021 09:23:11: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:23:11: #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 09:23:12: #1 tags after filtering in treatment: 3139511 INFO @ Sat, 17 Apr 2021 09:23:12: #1 Redundant rate of treatment: 0.74 INFO @ Sat, 17 Apr 2021 09:23:12: #1 finished! INFO @ Sat, 17 Apr 2021 09:23:12: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:23:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:23:12: #2 number of paired peaks: 44 WARNING @ Sat, 17 Apr 2021 09:23:12: Too few paired peaks (44) 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 09:23:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.10_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/SRX4555007/SRX4555007.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:23:14: 22000000 INFO @ Sat, 17 Apr 2021 09:23:25: 23000000 INFO @ Sat, 17 Apr 2021 09:23:35: 24000000 INFO @ Sat, 17 Apr 2021 09:23:38: #1 tag size is determined as 75 bps INFO @ Sat, 17 Apr 2021 09:23:38: #1 tag size = 75 INFO @ Sat, 17 Apr 2021 09:23:38: #1 total tags in treatment: 11857728 INFO @ Sat, 17 Apr 2021 09:23:38: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:23:38: #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 09:23:39: #1 tags after filtering in treatment: 3139511 INFO @ Sat, 17 Apr 2021 09:23:39: #1 Redundant rate of treatment: 0.74 INFO @ Sat, 17 Apr 2021 09:23:39: #1 finished! INFO @ Sat, 17 Apr 2021 09:23:39: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:23:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:23:39: #2 number of paired peaks: 44 WARNING @ Sat, 17 Apr 2021 09:23:39: Too few paired peaks (44) 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 09:23:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.20_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/SRX4555007/SRX4555007.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555007/SRX4555007.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling