Job ID = 7107891 SRX = SRX7217640 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 42137746 spots for SRR10533717/SRR10533717.sra Written 42137746 spots for SRR10533717/SRR10533717.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: 00:51:26 42137746 reads; of these: 42137746 (100.00%) were paired; of these: 18745461 (44.49%) aligned concordantly 0 times 19603693 (46.52%) aligned concordantly exactly 1 time 3788592 (8.99%) aligned concordantly >1 times ---- 18745461 pairs aligned concordantly 0 times; of these: 7475606 (39.88%) aligned discordantly 1 time ---- 11269855 pairs aligned 0 times concordantly or discordantly; of these: 22539710 mates make up the pairs; of these: 18830084 (83.54%) aligned 0 times 857362 (3.80%) aligned exactly 1 time 2852264 (12.65%) aligned >1 times 77.66% overall alignment rate Time searching: 00:51:26 Overall time: 00:51:26 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 48 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] 11415402 / 30594185 = 0.3731 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:29:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.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 @ Wed, 22 Jul 2020 14:29:16: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:29:16: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:29:23: 1000000 INFO @ Wed, 22 Jul 2020 14:29:31: 2000000 INFO @ Wed, 22 Jul 2020 14:29:38: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:29:46: 4000000 INFO @ Wed, 22 Jul 2020 14:29:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.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 @ Wed, 22 Jul 2020 14:29:46: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:29:46: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:29:54: 5000000 INFO @ Wed, 22 Jul 2020 14:29:55: 1000000 INFO @ Wed, 22 Jul 2020 14:30:03: 6000000 INFO @ Wed, 22 Jul 2020 14:30:03: 2000000 INFO @ Wed, 22 Jul 2020 14:30:11: 7000000 INFO @ Wed, 22 Jul 2020 14:30:12: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:30:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.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 @ Wed, 22 Jul 2020 14:30:16: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:30:16: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:30:20: 8000000 INFO @ Wed, 22 Jul 2020 14:30:21: 4000000 INFO @ Wed, 22 Jul 2020 14:30:25: 1000000 INFO @ Wed, 22 Jul 2020 14:30:29: 9000000 INFO @ Wed, 22 Jul 2020 14:30:30: 5000000 INFO @ Wed, 22 Jul 2020 14:30:34: 2000000 INFO @ Wed, 22 Jul 2020 14:30:38: 10000000 INFO @ Wed, 22 Jul 2020 14:30:38: 6000000 INFO @ Wed, 22 Jul 2020 14:30:43: 3000000 INFO @ Wed, 22 Jul 2020 14:30:46: 11000000 INFO @ Wed, 22 Jul 2020 14:30:47: 7000000 INFO @ Wed, 22 Jul 2020 14:30:51: 4000000 INFO @ Wed, 22 Jul 2020 14:30:55: 12000000 INFO @ Wed, 22 Jul 2020 14:30:56: 8000000 INFO @ Wed, 22 Jul 2020 14:31:00: 5000000 INFO @ Wed, 22 Jul 2020 14:31:04: 13000000 INFO @ Wed, 22 Jul 2020 14:31:05: 9000000 INFO @ Wed, 22 Jul 2020 14:31:09: 6000000 INFO @ Wed, 22 Jul 2020 14:31:12: 14000000 INFO @ Wed, 22 Jul 2020 14:31:14: 10000000 INFO @ Wed, 22 Jul 2020 14:31:18: 7000000 INFO @ Wed, 22 Jul 2020 14:31:21: 15000000 INFO @ Wed, 22 Jul 2020 14:31:23: 11000000 INFO @ Wed, 22 Jul 2020 14:31:27: 8000000 INFO @ Wed, 22 Jul 2020 14:31:30: 16000000 INFO @ Wed, 22 Jul 2020 14:31:31: 12000000 INFO @ Wed, 22 Jul 2020 14:31:36: 9000000 INFO @ Wed, 22 Jul 2020 14:31:38: 17000000 INFO @ Wed, 22 Jul 2020 14:31:40: 13000000 INFO @ Wed, 22 Jul 2020 14:31:44: 10000000 INFO @ Wed, 22 Jul 2020 14:31:47: 18000000 INFO @ Wed, 22 Jul 2020 14:31:49: 14000000 INFO @ Wed, 22 Jul 2020 14:31:53: 11000000 INFO @ Wed, 22 Jul 2020 14:31:56: 19000000 INFO @ Wed, 22 Jul 2020 14:31:58: 15000000 INFO @ Wed, 22 Jul 2020 14:32:02: 12000000 INFO @ Wed, 22 Jul 2020 14:32:04: 20000000 INFO @ Wed, 22 Jul 2020 14:32:06: 16000000 INFO @ Wed, 22 Jul 2020 14:32:11: 13000000 INFO @ Wed, 22 Jul 2020 14:32:13: 21000000 INFO @ Wed, 22 Jul 2020 14:32:15: 17000000 INFO @ Wed, 22 Jul 2020 14:32:20: 14000000 INFO @ Wed, 22 Jul 2020 14:32:22: 22000000 INFO @ Wed, 22 Jul 2020 14:32:24: 18000000 INFO @ Wed, 22 Jul 2020 14:32:29: 15000000 INFO @ Wed, 22 Jul 2020 14:32:31: 23000000 INFO @ Wed, 22 Jul 2020 14:32:33: 19000000 INFO @ Wed, 22 Jul 2020 14:32:37: 16000000 INFO @ Wed, 22 Jul 2020 14:32:39: 24000000 INFO @ Wed, 22 Jul 2020 14:32:42: 20000000 INFO @ Wed, 22 Jul 2020 14:32:47: 17000000 INFO @ Wed, 22 Jul 2020 14:32:49: 25000000 INFO @ Wed, 22 Jul 2020 14:32:51: 21000000 INFO @ Wed, 22 Jul 2020 14:32:56: 18000000 INFO @ Wed, 22 Jul 2020 14:32:58: 26000000 INFO @ Wed, 22 Jul 2020 14:33:00: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:33:05: 19000000 INFO @ Wed, 22 Jul 2020 14:33:07: 27000000 INFO @ Wed, 22 Jul 2020 14:33:09: 23000000 INFO @ Wed, 22 Jul 2020 14:33:14: 20000000 INFO @ Wed, 22 Jul 2020 14:33:17: 28000000 INFO @ Wed, 22 Jul 2020 14:33:19: 24000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:33:24: 21000000 INFO @ Wed, 22 Jul 2020 14:33:26: 29000000 INFO @ Wed, 22 Jul 2020 14:33:28: 25000000 INFO @ Wed, 22 Jul 2020 14:33:33: 22000000 INFO @ Wed, 22 Jul 2020 14:33:35: 30000000 INFO @ Wed, 22 Jul 2020 14:33:37: 26000000 INFO @ Wed, 22 Jul 2020 14:33:42: 23000000 INFO @ Wed, 22 Jul 2020 14:33:44: 31000000 INFO @ Wed, 22 Jul 2020 14:33:46: 27000000 INFO @ Wed, 22 Jul 2020 14:33:52: 24000000 INFO @ Wed, 22 Jul 2020 14:33:53: 32000000 INFO @ Wed, 22 Jul 2020 14:33:55: 28000000 INFO @ Wed, 22 Jul 2020 14:34:01: 25000000 INFO @ Wed, 22 Jul 2020 14:34:02: 33000000 INFO @ Wed, 22 Jul 2020 14:34:04: 29000000 INFO @ Wed, 22 Jul 2020 14:34:10: 26000000 INFO @ Wed, 22 Jul 2020 14:34:11: 34000000 INFO @ Wed, 22 Jul 2020 14:34:13: 30000000 INFO @ Wed, 22 Jul 2020 14:34:19: 27000000 INFO @ Wed, 22 Jul 2020 14:34:20: 35000000 INFO @ Wed, 22 Jul 2020 14:34:22: 31000000 INFO @ Wed, 22 Jul 2020 14:34:27: 28000000 INFO @ Wed, 22 Jul 2020 14:34:29: 36000000 INFO @ Wed, 22 Jul 2020 14:34:31: 32000000 INFO @ Wed, 22 Jul 2020 14:34:36: 29000000 INFO @ Wed, 22 Jul 2020 14:34:38: 37000000 INFO @ Wed, 22 Jul 2020 14:34:40: 33000000 INFO @ Wed, 22 Jul 2020 14:34:45: 30000000 INFO @ Wed, 22 Jul 2020 14:34:47: 38000000 INFO @ Wed, 22 Jul 2020 14:34:49: 34000000 INFO @ Wed, 22 Jul 2020 14:34:54: 31000000 INFO @ Wed, 22 Jul 2020 14:34:56: 39000000 INFO @ Wed, 22 Jul 2020 14:34:58: 35000000 INFO @ Wed, 22 Jul 2020 14:35:03: 32000000 INFO @ Wed, 22 Jul 2020 14:35:05: 40000000 INFO @ Wed, 22 Jul 2020 14:35:07: 36000000 INFO @ Wed, 22 Jul 2020 14:35:12: 33000000 INFO @ Wed, 22 Jul 2020 14:35:13: 41000000 INFO @ Wed, 22 Jul 2020 14:35:16: 37000000 INFO @ Wed, 22 Jul 2020 14:35:21: 34000000 INFO @ Wed, 22 Jul 2020 14:35:22: 42000000 INFO @ Wed, 22 Jul 2020 14:35:24: 38000000 INFO @ Wed, 22 Jul 2020 14:35:28: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:35:28: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:35:28: #1 total tags in treatment: 14287219 INFO @ Wed, 22 Jul 2020 14:35:28: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:35:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:35:28: #1 tags after filtering in treatment: 9105295 INFO @ Wed, 22 Jul 2020 14:35:28: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 14:35:28: #1 finished! INFO @ Wed, 22 Jul 2020 14:35:28: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:35:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:35:28: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:35:28: 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 @ Wed, 22 Jul 2020 14:35:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.05_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/SRX7217640/SRX7217640.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:35:30: 35000000 INFO @ Wed, 22 Jul 2020 14:35:33: 39000000 INFO @ Wed, 22 Jul 2020 14:35:39: 36000000 INFO @ Wed, 22 Jul 2020 14:35:42: 40000000 INFO @ Wed, 22 Jul 2020 14:35:48: 37000000 INFO @ Wed, 22 Jul 2020 14:35:51: 41000000 INFO @ Wed, 22 Jul 2020 14:35:57: 38000000 INFO @ Wed, 22 Jul 2020 14:35:59: 42000000 INFO @ Wed, 22 Jul 2020 14:36:05: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:36:05: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:36:05: #1 total tags in treatment: 14287219 INFO @ Wed, 22 Jul 2020 14:36:05: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:36:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:36:05: #1 tags after filtering in treatment: 9105295 INFO @ Wed, 22 Jul 2020 14:36:05: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 14:36:05: #1 finished! INFO @ Wed, 22 Jul 2020 14:36:05: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:36:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:36:05: 39000000 INFO @ Wed, 22 Jul 2020 14:36:05: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:36:05: 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 @ Wed, 22 Jul 2020 14:36:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.10_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/SRX7217640/SRX7217640.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:36:13: 40000000 INFO @ Wed, 22 Jul 2020 14:36:20: 41000000 INFO @ Wed, 22 Jul 2020 14:36:28: 42000000 INFO @ Wed, 22 Jul 2020 14:36:32: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:36:32: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:36:32: #1 total tags in treatment: 14287219 INFO @ Wed, 22 Jul 2020 14:36:32: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:36:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:36:33: #1 tags after filtering in treatment: 9105295 INFO @ Wed, 22 Jul 2020 14:36:33: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 14:36:33: #1 finished! INFO @ Wed, 22 Jul 2020 14:36:33: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:36:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:36:33: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:36:33: 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 @ Wed, 22 Jul 2020 14:36:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217640/SRX7217640.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling