Job ID = 7109801 SRX = SRX8036511 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14167413 spots for SRR11458958/SRR11458958.sra Written 14167413 spots for SRR11458958/SRR11458958.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: 00:17:51 14167413 reads; of these: 14167413 (100.00%) were paired; of these: 602819 (4.25%) aligned concordantly 0 times 11113603 (78.44%) aligned concordantly exactly 1 time 2450991 (17.30%) aligned concordantly >1 times ---- 602819 pairs aligned concordantly 0 times; of these: 110276 (18.29%) aligned discordantly 1 time ---- 492543 pairs aligned 0 times concordantly or discordantly; of these: 985086 mates make up the pairs; of these: 841996 (85.47%) aligned 0 times 73031 (7.41%) aligned exactly 1 time 70059 (7.11%) aligned >1 times 97.03% overall alignment rate Time searching: 00:17:51 Overall time: 00:17:52 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] 2722833 / 13658873 = 0.1993 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 14:18:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.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 14:18:55: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:18:55: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:19:01: 1000000 INFO @ Wed, 22 Jul 2020 14:19:07: 2000000 INFO @ Wed, 22 Jul 2020 14:19:14: 3000000 INFO @ Wed, 22 Jul 2020 14:19:20: 4000000 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 14:19:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.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 14:19:24: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:19:24: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:19:27: 5000000 INFO @ Wed, 22 Jul 2020 14:19:30: 1000000 INFO @ Wed, 22 Jul 2020 14:19:34: 6000000 INFO @ Wed, 22 Jul 2020 14:19:37: 2000000 INFO @ Wed, 22 Jul 2020 14:19:40: 7000000 INFO @ Wed, 22 Jul 2020 14:19:44: 3000000 INFO @ Wed, 22 Jul 2020 14:19:47: 8000000 INFO @ Wed, 22 Jul 2020 14:19:51: 4000000 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 14:19:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.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 14:19:54: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:19:54: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:19:54: 9000000 INFO @ Wed, 22 Jul 2020 14:19:57: 5000000 INFO @ Wed, 22 Jul 2020 14:20:01: 1000000 INFO @ Wed, 22 Jul 2020 14:20:01: 10000000 INFO @ Wed, 22 Jul 2020 14:20:04: 6000000 INFO @ Wed, 22 Jul 2020 14:20:08: 2000000 INFO @ Wed, 22 Jul 2020 14:20:08: 11000000 INFO @ Wed, 22 Jul 2020 14:20:11: 7000000 INFO @ Wed, 22 Jul 2020 14:20:15: 3000000 INFO @ Wed, 22 Jul 2020 14:20:15: 12000000 INFO @ Wed, 22 Jul 2020 14:20:18: 8000000 INFO @ Wed, 22 Jul 2020 14:20:21: 4000000 INFO @ Wed, 22 Jul 2020 14:20:22: 13000000 INFO @ Wed, 22 Jul 2020 14:20:24: 9000000 INFO @ Wed, 22 Jul 2020 14:20:28: 5000000 INFO @ Wed, 22 Jul 2020 14:20:28: 14000000 INFO @ Wed, 22 Jul 2020 14:20:31: 10000000 INFO @ Wed, 22 Jul 2020 14:20:35: 15000000 INFO @ Wed, 22 Jul 2020 14:20:35: 6000000 INFO @ Wed, 22 Jul 2020 14:20:38: 11000000 INFO @ Wed, 22 Jul 2020 14:20:42: 16000000 INFO @ Wed, 22 Jul 2020 14:20:42: 7000000 INFO @ Wed, 22 Jul 2020 14:20:45: 12000000 INFO @ Wed, 22 Jul 2020 14:20:49: 8000000 INFO @ Wed, 22 Jul 2020 14:20:49: 17000000 INFO @ Wed, 22 Jul 2020 14:20:52: 13000000 INFO @ Wed, 22 Jul 2020 14:20:55: 18000000 INFO @ Wed, 22 Jul 2020 14:20:55: 9000000 INFO @ Wed, 22 Jul 2020 14:20:58: 14000000 INFO @ Wed, 22 Jul 2020 14:21:02: 19000000 INFO @ Wed, 22 Jul 2020 14:21:02: 10000000 INFO @ Wed, 22 Jul 2020 14:21:05: 15000000 INFO @ Wed, 22 Jul 2020 14:21:08: 20000000 INFO @ Wed, 22 Jul 2020 14:21:09: 11000000 INFO @ Wed, 22 Jul 2020 14:21:12: 16000000 INFO @ Wed, 22 Jul 2020 14:21:15: 21000000 INFO @ Wed, 22 Jul 2020 14:21:16: 12000000 INFO @ Wed, 22 Jul 2020 14:21:19: 17000000 INFO @ Wed, 22 Jul 2020 14:21:22: 22000000 INFO @ Wed, 22 Jul 2020 14:21:22: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:21:22: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:21:22: #1 total tags in treatment: 10853047 INFO @ Wed, 22 Jul 2020 14:21:22: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:21:22: #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 14:21:22: #1 tags after filtering in treatment: 7499086 INFO @ Wed, 22 Jul 2020 14:21:22: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 14:21:22: #1 finished! INFO @ Wed, 22 Jul 2020 14:21:22: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:21:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:21:23: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:21:23: 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 14:21:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.05_peaks.narrowPeak: No such file or directory INFO @ Wed, 22 Jul 2020 14:21:23: 13000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:21:25: 18000000 INFO @ Wed, 22 Jul 2020 14:21:29: 14000000 INFO @ Wed, 22 Jul 2020 14:21:32: 19000000 INFO @ Wed, 22 Jul 2020 14:21:36: 15000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:21:38: 20000000 INFO @ Wed, 22 Jul 2020 14:21:43: 16000000 INFO @ Wed, 22 Jul 2020 14:21:45: 21000000 INFO @ Wed, 22 Jul 2020 14:21:49: 17000000 INFO @ Wed, 22 Jul 2020 14:21:51: 22000000 INFO @ Wed, 22 Jul 2020 14:21:51: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:21:51: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:21:51: #1 total tags in treatment: 10853047 INFO @ Wed, 22 Jul 2020 14:21:51: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:21:51: #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 14:21:52: #1 tags after filtering in treatment: 7499086 INFO @ Wed, 22 Jul 2020 14:21:52: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 14:21:52: #1 finished! INFO @ Wed, 22 Jul 2020 14:21:52: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:21:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:21:52: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:21:52: 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 14:21:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.10_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/SRX8036511/SRX8036511.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:21:56: 18000000 INFO @ Wed, 22 Jul 2020 14:22:02: 19000000 INFO @ Wed, 22 Jul 2020 14:22:08: 20000000 INFO @ Wed, 22 Jul 2020 14:22:15: 21000000 INFO @ Wed, 22 Jul 2020 14:22:21: 22000000 INFO @ Wed, 22 Jul 2020 14:22:21: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:22:21: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:22:21: #1 total tags in treatment: 10853047 INFO @ Wed, 22 Jul 2020 14:22:21: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:22:21: #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 14:22:21: #1 tags after filtering in treatment: 7499086 INFO @ Wed, 22 Jul 2020 14:22:21: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 14:22:21: #1 finished! INFO @ Wed, 22 Jul 2020 14:22:21: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:22:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:22:22: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:22:22: 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 14:22:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.20_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/SRX8036511/SRX8036511.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036511/SRX8036511.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling