Job ID = 14520142 SRX = SRX9345659 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17219756 spots for SRR12879683/SRR12879683.sra Written 17219756 spots for SRR12879683/SRR12879683.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: 00:28:45 17219756 reads; of these: 17219756 (100.00%) were paired; of these: 1500929 (8.72%) aligned concordantly 0 times 11872614 (68.95%) aligned concordantly exactly 1 time 3846213 (22.34%) aligned concordantly >1 times ---- 1500929 pairs aligned concordantly 0 times; of these: 168662 (11.24%) aligned discordantly 1 time ---- 1332267 pairs aligned 0 times concordantly or discordantly; of these: 2664534 mates make up the pairs; of these: 2055361 (77.14%) aligned 0 times 361183 (13.56%) aligned exactly 1 time 247990 (9.31%) aligned >1 times 94.03% overall alignment rate Time searching: 00:28:45 Overall time: 00:28:45 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] 597954 / 8921539 = 0.0670 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 19:17:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.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 19:17:35: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:17:35: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:17:46: 1000000 INFO @ Sat, 15 Jan 2022 19:17:57: 2000000 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 19:18:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.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 19:18:05: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:18:05: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:18:08: 3000000 INFO @ Sat, 15 Jan 2022 19:18:17: 1000000 INFO @ Sat, 15 Jan 2022 19:18:20: 4000000 INFO @ Sat, 15 Jan 2022 19:18:29: 2000000 INFO @ Sat, 15 Jan 2022 19:18:31: 5000000 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 19:18:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.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 19:18:35: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:18:35: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:18:41: 3000000 INFO @ Sat, 15 Jan 2022 19:18:43: 6000000 INFO @ Sat, 15 Jan 2022 19:18:48: 1000000 INFO @ Sat, 15 Jan 2022 19:18:54: 4000000 INFO @ Sat, 15 Jan 2022 19:18:55: 7000000 INFO @ Sat, 15 Jan 2022 19:19:00: 2000000 INFO @ Sat, 15 Jan 2022 19:19:06: 5000000 INFO @ Sat, 15 Jan 2022 19:19:07: 8000000 INFO @ Sat, 15 Jan 2022 19:19:12: 3000000 INFO @ Sat, 15 Jan 2022 19:19:18: 6000000 INFO @ Sat, 15 Jan 2022 19:19:18: 9000000 INFO @ Sat, 15 Jan 2022 19:19:24: 4000000 INFO @ Sat, 15 Jan 2022 19:19:30: 10000000 INFO @ Sat, 15 Jan 2022 19:19:30: 7000000 INFO @ Sat, 15 Jan 2022 19:19:37: 5000000 INFO @ Sat, 15 Jan 2022 19:19:42: 11000000 INFO @ Sat, 15 Jan 2022 19:19:43: 8000000 INFO @ Sat, 15 Jan 2022 19:19:49: 6000000 INFO @ Sat, 15 Jan 2022 19:19:54: 12000000 INFO @ Sat, 15 Jan 2022 19:19:55: 9000000 INFO @ Sat, 15 Jan 2022 19:20:01: 7000000 INFO @ Sat, 15 Jan 2022 19:20:06: 13000000 INFO @ Sat, 15 Jan 2022 19:20:07: 10000000 INFO @ Sat, 15 Jan 2022 19:20:13: 8000000 INFO @ Sat, 15 Jan 2022 19:20:18: 14000000 INFO @ Sat, 15 Jan 2022 19:20:19: 11000000 INFO @ Sat, 15 Jan 2022 19:20:25: 9000000 INFO @ Sat, 15 Jan 2022 19:20:30: 15000000 INFO @ Sat, 15 Jan 2022 19:20:32: 12000000 INFO @ Sat, 15 Jan 2022 19:20:37: 10000000 INFO @ Sat, 15 Jan 2022 19:20:42: 16000000 INFO @ Sat, 15 Jan 2022 19:20:44: 13000000 INFO @ Sat, 15 Jan 2022 19:20:50: 11000000 INFO @ Sat, 15 Jan 2022 19:20:53: 17000000 INFO @ Sat, 15 Jan 2022 19:20:56: 14000000 INFO @ Sat, 15 Jan 2022 19:21:02: 12000000 INFO @ Sat, 15 Jan 2022 19:21:05: 18000000 INFO @ Sat, 15 Jan 2022 19:21:08: 15000000 INFO @ Sat, 15 Jan 2022 19:21:14: 13000000 INFO @ Sat, 15 Jan 2022 19:21:17: 19000000 INFO @ Sat, 15 Jan 2022 19:21:20: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:21:26: 14000000 INFO @ Sat, 15 Jan 2022 19:21:28: 20000000 INFO @ Sat, 15 Jan 2022 19:21:31: 17000000 INFO @ Sat, 15 Jan 2022 19:21:38: 15000000 INFO @ Sat, 15 Jan 2022 19:21:40: 21000000 INFO @ Sat, 15 Jan 2022 19:21:43: 18000000 INFO @ Sat, 15 Jan 2022 19:21:50: 16000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:21:52: 22000000 INFO @ Sat, 15 Jan 2022 19:21:55: 19000000 INFO @ Sat, 15 Jan 2022 19:22:02: 17000000 INFO @ Sat, 15 Jan 2022 19:22:04: 23000000 INFO @ Sat, 15 Jan 2022 19:22:07: 20000000 INFO @ Sat, 15 Jan 2022 19:22:14: 18000000 INFO @ Sat, 15 Jan 2022 19:22:17: 24000000 INFO @ Sat, 15 Jan 2022 19:22:18: 21000000 INFO @ Sat, 15 Jan 2022 19:22:26: 19000000 INFO @ Sat, 15 Jan 2022 19:22:29: 25000000 INFO @ Sat, 15 Jan 2022 19:22:30: 22000000 INFO @ Sat, 15 Jan 2022 19:22:38: 20000000 INFO @ Sat, 15 Jan 2022 19:22:40: 26000000 INFO @ Sat, 15 Jan 2022 19:22:42: 23000000 INFO @ Sat, 15 Jan 2022 19:22:51: 21000000 INFO @ Sat, 15 Jan 2022 19:22:52: 27000000 INFO @ Sat, 15 Jan 2022 19:22:55: 24000000 INFO @ Sat, 15 Jan 2022 19:23:03: 22000000 INFO @ Sat, 15 Jan 2022 19:23:04: 28000000 INFO @ Sat, 15 Jan 2022 19:23:07: 25000000 INFO @ Sat, 15 Jan 2022 19:23:15: 23000000 INFO @ Sat, 15 Jan 2022 19:23:16: 29000000 INFO @ Sat, 15 Jan 2022 19:23:19: 26000000 INFO @ Sat, 15 Jan 2022 19:23:27: 24000000 INFO @ Sat, 15 Jan 2022 19:23:28: 30000000 INFO @ Sat, 15 Jan 2022 19:23:31: 27000000 INFO @ Sat, 15 Jan 2022 19:23:39: 25000000 INFO @ Sat, 15 Jan 2022 19:23:40: 31000000 INFO @ Sat, 15 Jan 2022 19:23:43: #1 tag size is determined as 125 bps INFO @ Sat, 15 Jan 2022 19:23:43: #1 tag size = 125 INFO @ Sat, 15 Jan 2022 19:23:43: #1 total tags in treatment: 15122945 INFO @ Sat, 15 Jan 2022 19:23:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:23:43: #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 19:23:43: 28000000 INFO @ Sat, 15 Jan 2022 19:23:43: #1 tags after filtering in treatment: 9440179 INFO @ Sat, 15 Jan 2022 19:23:43: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 19:23:43: #1 finished! INFO @ Sat, 15 Jan 2022 19:23:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:23:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:23:43: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:23:43: 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 19:23:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.05_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/SRX9345659/SRX9345659.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:23:50: 26000000 INFO @ Sat, 15 Jan 2022 19:23:55: 29000000 INFO @ Sat, 15 Jan 2022 19:24:02: 27000000 INFO @ Sat, 15 Jan 2022 19:24:06: 30000000 INFO @ Sat, 15 Jan 2022 19:24:13: 28000000 INFO @ Sat, 15 Jan 2022 19:24:18: 31000000 INFO @ Sat, 15 Jan 2022 19:24:20: #1 tag size is determined as 125 bps INFO @ Sat, 15 Jan 2022 19:24:20: #1 tag size = 125 INFO @ Sat, 15 Jan 2022 19:24:20: #1 total tags in treatment: 15122945 INFO @ Sat, 15 Jan 2022 19:24:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:24:20: #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 19:24:20: #1 tags after filtering in treatment: 9440179 INFO @ Sat, 15 Jan 2022 19:24:20: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 19:24:20: #1 finished! INFO @ Sat, 15 Jan 2022 19:24:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:24:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:24:21: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:24:21: 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 19:24:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.10_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/SRX9345659/SRX9345659.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:24:24: 29000000 INFO @ Sat, 15 Jan 2022 19:24:35: 30000000 INFO @ Sat, 15 Jan 2022 19:24:45: 31000000 INFO @ Sat, 15 Jan 2022 19:24:47: #1 tag size is determined as 125 bps INFO @ Sat, 15 Jan 2022 19:24:47: #1 tag size = 125 INFO @ Sat, 15 Jan 2022 19:24:47: #1 total tags in treatment: 15122945 INFO @ Sat, 15 Jan 2022 19:24:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:24:47: #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 19:24:47: #1 tags after filtering in treatment: 9440179 INFO @ Sat, 15 Jan 2022 19:24:47: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 19:24:47: #1 finished! INFO @ Sat, 15 Jan 2022 19:24:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:24:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:24:48: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:24:48: 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 19:24:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.20_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/SRX9345659/SRX9345659.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9345659/SRX9345659.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling