Job ID = 7108983 SRX = SRX8036499 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16101942 spots for SRR11458946/SRR11458946.sra Written 16101942 spots for SRR11458946/SRR11458946.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: 00:20:04 16101942 reads; of these: 16101942 (100.00%) were paired; of these: 528771 (3.28%) aligned concordantly 0 times 12842011 (79.75%) aligned concordantly exactly 1 time 2731160 (16.96%) aligned concordantly >1 times ---- 528771 pairs aligned concordantly 0 times; of these: 59901 (11.33%) aligned discordantly 1 time ---- 468870 pairs aligned 0 times concordantly or discordantly; of these: 937740 mates make up the pairs; of these: 820484 (87.50%) aligned 0 times 71560 (7.63%) aligned exactly 1 time 45696 (4.87%) aligned >1 times 97.45% overall alignment rate Time searching: 00:20:04 Overall time: 00:20:04 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] 3254252 / 15617543 = 0.2084 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 14:14:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.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 14:14:15: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:14:15: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:14:24: 1000000 INFO @ Wed, 22 Jul 2020 14:14:32: 2000000 INFO @ Wed, 22 Jul 2020 14:14:40: 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 14:14:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.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 14:14:45: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:14:45: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:14:49: 4000000 INFO @ Wed, 22 Jul 2020 14:14:56: 1000000 INFO @ Wed, 22 Jul 2020 14:14:59: 5000000 INFO @ Wed, 22 Jul 2020 14:15:05: 2000000 INFO @ Wed, 22 Jul 2020 14:15:09: 6000000 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 14:15:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.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 14:15:15: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:15:15: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:15:16: 3000000 INFO @ Wed, 22 Jul 2020 14:15:19: 7000000 INFO @ Wed, 22 Jul 2020 14:15:27: 4000000 INFO @ Wed, 22 Jul 2020 14:15:27: 1000000 INFO @ Wed, 22 Jul 2020 14:15:31: 8000000 INFO @ Wed, 22 Jul 2020 14:15:39: 5000000 INFO @ Wed, 22 Jul 2020 14:15:40: 2000000 INFO @ Wed, 22 Jul 2020 14:15:43: 9000000 INFO @ Wed, 22 Jul 2020 14:15:50: 6000000 INFO @ Wed, 22 Jul 2020 14:15:52: 3000000 INFO @ Wed, 22 Jul 2020 14:15:54: 10000000 INFO @ Wed, 22 Jul 2020 14:16:02: 7000000 INFO @ Wed, 22 Jul 2020 14:16:05: 4000000 INFO @ Wed, 22 Jul 2020 14:16:06: 11000000 INFO @ Wed, 22 Jul 2020 14:16:13: 8000000 INFO @ Wed, 22 Jul 2020 14:16:17: 5000000 INFO @ Wed, 22 Jul 2020 14:16:17: 12000000 INFO @ Wed, 22 Jul 2020 14:16:25: 9000000 INFO @ Wed, 22 Jul 2020 14:16:29: 13000000 INFO @ Wed, 22 Jul 2020 14:16:30: 6000000 INFO @ Wed, 22 Jul 2020 14:16:36: 10000000 INFO @ Wed, 22 Jul 2020 14:16:40: 14000000 INFO @ Wed, 22 Jul 2020 14:16:41: 7000000 INFO @ Wed, 22 Jul 2020 14:16:48: 11000000 INFO @ Wed, 22 Jul 2020 14:16:52: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:16:53: 8000000 INFO @ Wed, 22 Jul 2020 14:16:59: 12000000 INFO @ Wed, 22 Jul 2020 14:17:03: 16000000 INFO @ Wed, 22 Jul 2020 14:17:05: 9000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:17:11: 13000000 INFO @ Wed, 22 Jul 2020 14:17:15: 17000000 INFO @ Wed, 22 Jul 2020 14:17:17: 10000000 INFO @ Wed, 22 Jul 2020 14:17:22: 14000000 INFO @ Wed, 22 Jul 2020 14:17:27: 18000000 INFO @ Wed, 22 Jul 2020 14:17:29: 11000000 INFO @ Wed, 22 Jul 2020 14:17:34: 15000000 INFO @ Wed, 22 Jul 2020 14:17:38: 19000000 INFO @ Wed, 22 Jul 2020 14:17:41: 12000000 INFO @ Wed, 22 Jul 2020 14:17:46: 16000000 INFO @ Wed, 22 Jul 2020 14:17:50: 20000000 INFO @ Wed, 22 Jul 2020 14:17:54: 13000000 INFO @ Wed, 22 Jul 2020 14:17:57: 17000000 INFO @ Wed, 22 Jul 2020 14:18:01: 21000000 INFO @ Wed, 22 Jul 2020 14:18:06: 14000000 INFO @ Wed, 22 Jul 2020 14:18:09: 18000000 INFO @ Wed, 22 Jul 2020 14:18:13: 22000000 INFO @ Wed, 22 Jul 2020 14:18:19: 15000000 INFO @ Wed, 22 Jul 2020 14:18:21: 19000000 INFO @ Wed, 22 Jul 2020 14:18:25: 23000000 INFO @ Wed, 22 Jul 2020 14:18:32: 16000000 INFO @ Wed, 22 Jul 2020 14:18:33: 20000000 INFO @ Wed, 22 Jul 2020 14:18:37: 24000000 INFO @ Wed, 22 Jul 2020 14:18:44: 17000000 INFO @ Wed, 22 Jul 2020 14:18:45: 21000000 INFO @ Wed, 22 Jul 2020 14:18:48: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:18:48: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:18:48: #1 total tags in treatment: 12324020 INFO @ Wed, 22 Jul 2020 14:18:48: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:18:48: #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 14:18:48: #1 tags after filtering in treatment: 8557152 INFO @ Wed, 22 Jul 2020 14:18:48: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 14:18:48: #1 finished! INFO @ Wed, 22 Jul 2020 14:18:48: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:18:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:18:49: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:18:49: 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 14:18:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.05_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/SRX8036499/SRX8036499.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:18:57: 18000000 INFO @ Wed, 22 Jul 2020 14:18:57: 22000000 INFO @ Wed, 22 Jul 2020 14:19:09: 23000000 INFO @ Wed, 22 Jul 2020 14:19:10: 19000000 INFO @ Wed, 22 Jul 2020 14:19:20: 24000000 INFO @ Wed, 22 Jul 2020 14:19:23: 20000000 INFO @ Wed, 22 Jul 2020 14:19:30: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:19:30: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:19:30: #1 total tags in treatment: 12324020 INFO @ Wed, 22 Jul 2020 14:19:30: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:19:30: #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 14:19:30: #1 tags after filtering in treatment: 8557152 INFO @ Wed, 22 Jul 2020 14:19:30: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 14:19:30: #1 finished! INFO @ Wed, 22 Jul 2020 14:19:30: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:19:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:19:30: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:19:30: 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 14:19:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.10_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/SRX8036499/SRX8036499.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:19:35: 21000000 INFO @ Wed, 22 Jul 2020 14:19:46: 22000000 INFO @ Wed, 22 Jul 2020 14:19:57: 23000000 INFO @ Wed, 22 Jul 2020 14:20:08: 24000000 INFO @ Wed, 22 Jul 2020 14:20:18: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:20:18: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:20:18: #1 total tags in treatment: 12324020 INFO @ Wed, 22 Jul 2020 14:20:18: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:20:18: #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 14:20:18: #1 tags after filtering in treatment: 8557152 INFO @ Wed, 22 Jul 2020 14:20:18: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 14:20:18: #1 finished! INFO @ Wed, 22 Jul 2020 14:20:18: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:20:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:20:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:20:18: 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 14:20:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.20_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/SRX8036499/SRX8036499.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036499/SRX8036499.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling