Job ID = 14519834 SRX = SRX8829409 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 23307886 spots for SRR12329189/SRR12329189.sra Written 23307886 spots for SRR12329189/SRR12329189.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: 00:13:40 23307886 reads; of these: 23307886 (100.00%) were paired; of these: 3531107 (15.15%) aligned concordantly 0 times 17501317 (75.09%) aligned concordantly exactly 1 time 2275462 (9.76%) aligned concordantly >1 times ---- 3531107 pairs aligned concordantly 0 times; of these: 484295 (13.72%) aligned discordantly 1 time ---- 3046812 pairs aligned 0 times concordantly or discordantly; of these: 6093624 mates make up the pairs; of these: 4038886 (66.28%) aligned 0 times 1699397 (27.89%) aligned exactly 1 time 355341 (5.83%) aligned >1 times 91.34% overall alignment rate Time searching: 00:13:40 Overall time: 00:13:40 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] 2754867 / 20182932 = 0.1365 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 18:18:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.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 18:18:05: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:18:05: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:18:10: 1000000 INFO @ Sat, 15 Jan 2022 18:18:16: 2000000 INFO @ Sat, 15 Jan 2022 18:18:22: 3000000 INFO @ Sat, 15 Jan 2022 18:18:28: 4000000 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 18:18:34: 5000000 INFO @ Sat, 15 Jan 2022 18:18:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.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 18:18:35: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:18:35: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:18:40: 6000000 INFO @ Sat, 15 Jan 2022 18:18:41: 1000000 INFO @ Sat, 15 Jan 2022 18:18:46: 7000000 INFO @ Sat, 15 Jan 2022 18:18:47: 2000000 INFO @ Sat, 15 Jan 2022 18:18:53: 8000000 INFO @ Sat, 15 Jan 2022 18:18:53: 3000000 INFO @ Sat, 15 Jan 2022 18:18:59: 9000000 INFO @ Sat, 15 Jan 2022 18:19:00: 4000000 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 18:19:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.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 18:19:05: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:19:05: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:19:05: 10000000 INFO @ Sat, 15 Jan 2022 18:19:06: 5000000 INFO @ Sat, 15 Jan 2022 18:19:10: 1000000 INFO @ Sat, 15 Jan 2022 18:19:11: 11000000 INFO @ Sat, 15 Jan 2022 18:19:12: 6000000 INFO @ Sat, 15 Jan 2022 18:19:16: 2000000 INFO @ Sat, 15 Jan 2022 18:19:18: 12000000 INFO @ Sat, 15 Jan 2022 18:19:19: 7000000 INFO @ Sat, 15 Jan 2022 18:19:22: 3000000 INFO @ Sat, 15 Jan 2022 18:19:24: 13000000 INFO @ Sat, 15 Jan 2022 18:19:25: 8000000 INFO @ Sat, 15 Jan 2022 18:19:28: 4000000 INFO @ Sat, 15 Jan 2022 18:19:30: 14000000 INFO @ Sat, 15 Jan 2022 18:19:32: 9000000 INFO @ Sat, 15 Jan 2022 18:19:33: 5000000 INFO @ Sat, 15 Jan 2022 18:19:37: 15000000 INFO @ Sat, 15 Jan 2022 18:19:38: 10000000 INFO @ Sat, 15 Jan 2022 18:19:39: 6000000 INFO @ Sat, 15 Jan 2022 18:19:43: 16000000 INFO @ Sat, 15 Jan 2022 18:19:44: 11000000 INFO @ Sat, 15 Jan 2022 18:19:45: 7000000 INFO @ Sat, 15 Jan 2022 18:19:49: 17000000 INFO @ Sat, 15 Jan 2022 18:19:51: 8000000 INFO @ Sat, 15 Jan 2022 18:19:51: 12000000 INFO @ Sat, 15 Jan 2022 18:19:56: 18000000 INFO @ Sat, 15 Jan 2022 18:19:56: 9000000 INFO @ Sat, 15 Jan 2022 18:19:57: 13000000 INFO @ Sat, 15 Jan 2022 18:20:02: 10000000 INFO @ Sat, 15 Jan 2022 18:20:02: 19000000 INFO @ Sat, 15 Jan 2022 18:20:04: 14000000 INFO @ Sat, 15 Jan 2022 18:20:08: 11000000 INFO @ Sat, 15 Jan 2022 18:20:08: 20000000 INFO @ Sat, 15 Jan 2022 18:20:10: 15000000 INFO @ Sat, 15 Jan 2022 18:20:13: 12000000 INFO @ Sat, 15 Jan 2022 18:20:15: 21000000 INFO @ Sat, 15 Jan 2022 18:20:16: 16000000 INFO @ Sat, 15 Jan 2022 18:20:19: 13000000 INFO @ Sat, 15 Jan 2022 18:20:21: 22000000 INFO @ Sat, 15 Jan 2022 18:20:23: 17000000 INFO @ Sat, 15 Jan 2022 18:20:25: 14000000 INFO @ Sat, 15 Jan 2022 18:20:27: 23000000 INFO @ Sat, 15 Jan 2022 18:20:29: 18000000 INFO @ Sat, 15 Jan 2022 18:20:30: 15000000 INFO @ Sat, 15 Jan 2022 18:20:34: 24000000 INFO @ Sat, 15 Jan 2022 18:20:35: 19000000 INFO @ Sat, 15 Jan 2022 18:20:36: 16000000 INFO @ Sat, 15 Jan 2022 18:20:40: 25000000 INFO @ Sat, 15 Jan 2022 18:20:42: 20000000 INFO @ Sat, 15 Jan 2022 18:20:42: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:20:46: 26000000 INFO @ Sat, 15 Jan 2022 18:20:48: 18000000 INFO @ Sat, 15 Jan 2022 18:20:48: 21000000 INFO @ Sat, 15 Jan 2022 18:20:52: 27000000 INFO @ Sat, 15 Jan 2022 18:20:53: 19000000 INFO @ Sat, 15 Jan 2022 18:20:54: 22000000 INFO @ Sat, 15 Jan 2022 18:20:59: 28000000 INFO @ Sat, 15 Jan 2022 18:20:59: 20000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:21:01: 23000000 INFO @ Sat, 15 Jan 2022 18:21:05: 21000000 INFO @ Sat, 15 Jan 2022 18:21:05: 29000000 INFO @ Sat, 15 Jan 2022 18:21:07: 24000000 INFO @ Sat, 15 Jan 2022 18:21:10: 22000000 INFO @ Sat, 15 Jan 2022 18:21:11: 30000000 INFO @ Sat, 15 Jan 2022 18:21:13: 25000000 INFO @ Sat, 15 Jan 2022 18:21:16: 23000000 INFO @ Sat, 15 Jan 2022 18:21:18: 31000000 INFO @ Sat, 15 Jan 2022 18:21:20: 26000000 INFO @ Sat, 15 Jan 2022 18:21:22: 24000000 INFO @ Sat, 15 Jan 2022 18:21:24: 32000000 INFO @ Sat, 15 Jan 2022 18:21:26: 27000000 INFO @ Sat, 15 Jan 2022 18:21:28: 25000000 INFO @ Sat, 15 Jan 2022 18:21:30: 33000000 INFO @ Sat, 15 Jan 2022 18:21:32: 28000000 INFO @ Sat, 15 Jan 2022 18:21:33: 26000000 INFO @ Sat, 15 Jan 2022 18:21:36: 34000000 INFO @ Sat, 15 Jan 2022 18:21:39: 29000000 INFO @ Sat, 15 Jan 2022 18:21:39: 27000000 INFO @ Sat, 15 Jan 2022 18:21:43: 35000000 INFO @ Sat, 15 Jan 2022 18:21:45: 28000000 INFO @ Sat, 15 Jan 2022 18:21:45: 30000000 INFO @ Sat, 15 Jan 2022 18:21:49: 36000000 INFO @ Sat, 15 Jan 2022 18:21:50: 29000000 INFO @ Sat, 15 Jan 2022 18:21:51: 31000000 INFO @ Sat, 15 Jan 2022 18:21:55: 37000000 INFO @ Sat, 15 Jan 2022 18:21:56: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:21:56: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:21:56: #1 total tags in treatment: 17055938 INFO @ Sat, 15 Jan 2022 18:21:56: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:21:56: #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 18:21:56: #1 tags after filtering in treatment: 8739905 INFO @ Sat, 15 Jan 2022 18:21:56: #1 Redundant rate of treatment: 0.49 INFO @ Sat, 15 Jan 2022 18:21:56: #1 finished! INFO @ Sat, 15 Jan 2022 18:21:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:21:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:21:56: 30000000 INFO @ Sat, 15 Jan 2022 18:21:56: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:21:56: 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 18:21:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.05_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/SRX8829409/SRX8829409.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:21:58: 32000000 INFO @ Sat, 15 Jan 2022 18:22:02: 31000000 INFO @ Sat, 15 Jan 2022 18:22:04: 33000000 INFO @ Sat, 15 Jan 2022 18:22:07: 32000000 INFO @ Sat, 15 Jan 2022 18:22:10: 34000000 INFO @ Sat, 15 Jan 2022 18:22:13: 33000000 INFO @ Sat, 15 Jan 2022 18:22:17: 35000000 INFO @ Sat, 15 Jan 2022 18:22:19: 34000000 INFO @ Sat, 15 Jan 2022 18:22:23: 36000000 INFO @ Sat, 15 Jan 2022 18:22:25: 35000000 INFO @ Sat, 15 Jan 2022 18:22:29: 37000000 INFO @ Sat, 15 Jan 2022 18:22:30: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:22:30: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:22:30: #1 total tags in treatment: 17055938 INFO @ Sat, 15 Jan 2022 18:22:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:22:30: #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 18:22:30: 36000000 INFO @ Sat, 15 Jan 2022 18:22:30: #1 tags after filtering in treatment: 8739905 INFO @ Sat, 15 Jan 2022 18:22:30: #1 Redundant rate of treatment: 0.49 INFO @ Sat, 15 Jan 2022 18:22:30: #1 finished! INFO @ Sat, 15 Jan 2022 18:22:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:22:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:22:31: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:22:31: 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 18:22:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.10_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/SRX8829409/SRX8829409.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:22:35: 37000000 INFO @ Sat, 15 Jan 2022 18:22:36: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:22:36: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:22:36: #1 total tags in treatment: 17055938 INFO @ Sat, 15 Jan 2022 18:22:36: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:22:36: #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 18:22:36: #1 tags after filtering in treatment: 8739905 INFO @ Sat, 15 Jan 2022 18:22:36: #1 Redundant rate of treatment: 0.49 INFO @ Sat, 15 Jan 2022 18:22:36: #1 finished! INFO @ Sat, 15 Jan 2022 18:22:36: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:22:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:22:37: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:22:37: 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 18:22:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.20_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/SRX8829409/SRX8829409.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829409/SRX8829409.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling