Job ID = 7110439 SRX = SRX8053694 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 30456017 spots for SRR11477535/SRR11477535.sra Written 30456017 spots for SRR11477535/SRR11477535.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: 00:17:24 30456017 reads; of these: 30456017 (100.00%) were paired; of these: 4936442 (16.21%) aligned concordantly 0 times 20562083 (67.51%) aligned concordantly exactly 1 time 4957492 (16.28%) aligned concordantly >1 times ---- 4936442 pairs aligned concordantly 0 times; of these: 2038353 (41.29%) aligned discordantly 1 time ---- 2898089 pairs aligned 0 times concordantly or discordantly; of these: 5796178 mates make up the pairs; of these: 2790056 (48.14%) aligned 0 times 1616413 (27.89%) aligned exactly 1 time 1389709 (23.98%) aligned >1 times 95.42% overall alignment rate Time searching: 00:17:24 Overall time: 00:17:24 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] 14587921 / 26280108 = 0.5551 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 14:30:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.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 14:30:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:30:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:30:07: 1000000 INFO @ Wed, 22 Jul 2020 14:30:11: 2000000 INFO @ Wed, 22 Jul 2020 14:30:16: 3000000 INFO @ Wed, 22 Jul 2020 14:30:20: 4000000 INFO @ Wed, 22 Jul 2020 14:30:24: 5000000 INFO @ Wed, 22 Jul 2020 14:30:29: 6000000 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 14:30:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.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 14:30:32: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:30:32: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:30:33: 7000000 INFO @ Wed, 22 Jul 2020 14:30:37: 1000000 INFO @ Wed, 22 Jul 2020 14:30:38: 8000000 INFO @ Wed, 22 Jul 2020 14:30:42: 2000000 INFO @ Wed, 22 Jul 2020 14:30:43: 9000000 INFO @ Wed, 22 Jul 2020 14:30:46: 3000000 INFO @ Wed, 22 Jul 2020 14:30:47: 10000000 INFO @ Wed, 22 Jul 2020 14:30:51: 4000000 INFO @ Wed, 22 Jul 2020 14:30:52: 11000000 INFO @ Wed, 22 Jul 2020 14:30:55: 5000000 INFO @ Wed, 22 Jul 2020 14:30:56: 12000000 INFO @ Wed, 22 Jul 2020 14:31:00: 6000000 INFO @ Wed, 22 Jul 2020 14:31:00: 13000000 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 14:31:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.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 14:31:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:31:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:31:05: 7000000 INFO @ Wed, 22 Jul 2020 14:31:05: 14000000 INFO @ Wed, 22 Jul 2020 14:31:07: 1000000 INFO @ Wed, 22 Jul 2020 14:31:09: 15000000 INFO @ Wed, 22 Jul 2020 14:31:10: 8000000 INFO @ Wed, 22 Jul 2020 14:31:12: 2000000 INFO @ Wed, 22 Jul 2020 14:31:14: 16000000 INFO @ Wed, 22 Jul 2020 14:31:14: 9000000 INFO @ Wed, 22 Jul 2020 14:31:16: 3000000 INFO @ Wed, 22 Jul 2020 14:31:18: 17000000 INFO @ Wed, 22 Jul 2020 14:31:19: 10000000 INFO @ Wed, 22 Jul 2020 14:31:21: 4000000 INFO @ Wed, 22 Jul 2020 14:31:23: 18000000 INFO @ Wed, 22 Jul 2020 14:31:23: 11000000 INFO @ Wed, 22 Jul 2020 14:31:26: 5000000 INFO @ Wed, 22 Jul 2020 14:31:27: 19000000 INFO @ Wed, 22 Jul 2020 14:31:28: 12000000 INFO @ Wed, 22 Jul 2020 14:31:31: 6000000 INFO @ Wed, 22 Jul 2020 14:31:32: 20000000 INFO @ Wed, 22 Jul 2020 14:31:32: 13000000 INFO @ Wed, 22 Jul 2020 14:31:35: 7000000 INFO @ Wed, 22 Jul 2020 14:31:36: 21000000 INFO @ Wed, 22 Jul 2020 14:31:37: 14000000 INFO @ Wed, 22 Jul 2020 14:31:40: 8000000 INFO @ Wed, 22 Jul 2020 14:31:41: 22000000 INFO @ Wed, 22 Jul 2020 14:31:41: 15000000 INFO @ Wed, 22 Jul 2020 14:31:45: 9000000 INFO @ Wed, 22 Jul 2020 14:31:45: 23000000 INFO @ Wed, 22 Jul 2020 14:31:46: 16000000 INFO @ Wed, 22 Jul 2020 14:31:49: 10000000 INFO @ Wed, 22 Jul 2020 14:31:50: 24000000 INFO @ Wed, 22 Jul 2020 14:31:51: 17000000 INFO @ Wed, 22 Jul 2020 14:31:54: 11000000 INFO @ Wed, 22 Jul 2020 14:31:54: 25000000 INFO @ Wed, 22 Jul 2020 14:31:55: 18000000 INFO @ Wed, 22 Jul 2020 14:31:58: 12000000 INFO @ Wed, 22 Jul 2020 14:31:59: 26000000 INFO @ Wed, 22 Jul 2020 14:31:59: 19000000 INFO @ Wed, 22 Jul 2020 14:32:03: 13000000 INFO @ Wed, 22 Jul 2020 14:32:04: 27000000 INFO @ Wed, 22 Jul 2020 14:32:04: 20000000 INFO @ Wed, 22 Jul 2020 14:32:07: 14000000 INFO @ Wed, 22 Jul 2020 14:32:08: 28000000 INFO @ Wed, 22 Jul 2020 14:32:08: 21000000 INFO @ Wed, 22 Jul 2020 14:32:12: 15000000 INFO @ Wed, 22 Jul 2020 14:32:12: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 14:32:12: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 14:32:12: #1 total tags in treatment: 11254678 INFO @ Wed, 22 Jul 2020 14:32:12: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:32:12: #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 14:32:13: #1 tags after filtering in treatment: 7466452 INFO @ Wed, 22 Jul 2020 14:32:13: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 14:32:13: #1 finished! INFO @ Wed, 22 Jul 2020 14:32:13: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:32:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:32:13: 22000000 INFO @ Wed, 22 Jul 2020 14:32:13: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:32:13: 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 14:32:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.05_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/SRX8053694/SRX8053694.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:32:16: 16000000 INFO @ Wed, 22 Jul 2020 14:32:17: 23000000 INFO @ Wed, 22 Jul 2020 14:32:20: 17000000 INFO @ Wed, 22 Jul 2020 14:32:22: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:32:25: 18000000 INFO @ Wed, 22 Jul 2020 14:32:26: 25000000 INFO @ Wed, 22 Jul 2020 14:32:29: 19000000 INFO @ Wed, 22 Jul 2020 14:32:31: 26000000 INFO @ Wed, 22 Jul 2020 14:32:34: 20000000 INFO @ Wed, 22 Jul 2020 14:32:35: 27000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:32:38: 21000000 INFO @ Wed, 22 Jul 2020 14:32:40: 28000000 INFO @ Wed, 22 Jul 2020 14:32:42: 22000000 INFO @ Wed, 22 Jul 2020 14:32:44: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 14:32:44: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 14:32:44: #1 total tags in treatment: 11254678 INFO @ Wed, 22 Jul 2020 14:32:44: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:32:44: #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 14:32:44: #1 tags after filtering in treatment: 7466452 INFO @ Wed, 22 Jul 2020 14:32:44: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 14:32:44: #1 finished! INFO @ Wed, 22 Jul 2020 14:32:44: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:32:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:32:45: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:32:45: 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 14:32:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.10_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/SRX8053694/SRX8053694.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:32:47: 23000000 INFO @ Wed, 22 Jul 2020 14:32:51: 24000000 INFO @ Wed, 22 Jul 2020 14:32:55: 25000000 INFO @ Wed, 22 Jul 2020 14:33:00: 26000000 INFO @ Wed, 22 Jul 2020 14:33:04: 27000000 INFO @ Wed, 22 Jul 2020 14:33:08: 28000000 INFO @ Wed, 22 Jul 2020 14:33:12: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 14:33:12: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 14:33:12: #1 total tags in treatment: 11254678 INFO @ Wed, 22 Jul 2020 14:33:12: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:33:12: #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 14:33:12: #1 tags after filtering in treatment: 7466452 INFO @ Wed, 22 Jul 2020 14:33:12: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 14:33:12: #1 finished! INFO @ Wed, 22 Jul 2020 14:33:12: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:33:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:33:13: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:33:13: 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 14:33:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.20_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/SRX8053694/SRX8053694.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053694/SRX8053694.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling