Job ID = 7107948 SRX = SRX7217644 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14762523 spots for SRR10533721/SRR10533721.sra Written 14762523 spots for SRR10533721/SRR10533721.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: 00:16:09 14762523 reads; of these: 14762523 (100.00%) were paired; of these: 6002388 (40.66%) aligned concordantly 0 times 7443353 (50.42%) aligned concordantly exactly 1 time 1316782 (8.92%) aligned concordantly >1 times ---- 6002388 pairs aligned concordantly 0 times; of these: 2063628 (34.38%) aligned discordantly 1 time ---- 3938760 pairs aligned 0 times concordantly or discordantly; of these: 7877520 mates make up the pairs; of these: 6825307 (86.64%) aligned 0 times 301417 (3.83%) aligned exactly 1 time 750796 (9.53%) aligned >1 times 76.88% overall alignment rate Time searching: 00:16:09 Overall time: 00:16:09 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] 1445543 / 10735474 = 0.1347 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 13:41:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.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 13:41:56: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:41:56: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:42:03: 1000000 INFO @ Wed, 22 Jul 2020 13:42:10: 2000000 INFO @ Wed, 22 Jul 2020 13:42:16: 3000000 INFO @ Wed, 22 Jul 2020 13:42:23: 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 13:42:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.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 13:42:26: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:42:26: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:42:30: 5000000 INFO @ Wed, 22 Jul 2020 13:42:34: 1000000 INFO @ Wed, 22 Jul 2020 13:42:37: 6000000 INFO @ Wed, 22 Jul 2020 13:42:41: 2000000 INFO @ Wed, 22 Jul 2020 13:42:44: 7000000 INFO @ Wed, 22 Jul 2020 13:42:48: 3000000 INFO @ Wed, 22 Jul 2020 13:42:52: 8000000 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 13:42:55: 4000000 INFO @ Wed, 22 Jul 2020 13:42:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.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 13:42:56: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:42:56: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:42:59: 9000000 INFO @ Wed, 22 Jul 2020 13:43:03: 5000000 INFO @ Wed, 22 Jul 2020 13:43:06: 1000000 INFO @ Wed, 22 Jul 2020 13:43:07: 10000000 INFO @ Wed, 22 Jul 2020 13:43:11: 6000000 INFO @ Wed, 22 Jul 2020 13:43:15: 11000000 INFO @ Wed, 22 Jul 2020 13:43:15: 2000000 INFO @ Wed, 22 Jul 2020 13:43:19: 7000000 INFO @ Wed, 22 Jul 2020 13:43:23: 12000000 INFO @ Wed, 22 Jul 2020 13:43:24: 3000000 INFO @ Wed, 22 Jul 2020 13:43:26: 8000000 INFO @ Wed, 22 Jul 2020 13:43:30: 13000000 INFO @ Wed, 22 Jul 2020 13:43:34: 4000000 INFO @ Wed, 22 Jul 2020 13:43:34: 9000000 INFO @ Wed, 22 Jul 2020 13:43:38: 14000000 INFO @ Wed, 22 Jul 2020 13:43:43: 10000000 INFO @ Wed, 22 Jul 2020 13:43:43: 5000000 INFO @ Wed, 22 Jul 2020 13:43:46: 15000000 INFO @ Wed, 22 Jul 2020 13:43:50: 11000000 INFO @ Wed, 22 Jul 2020 13:43:52: 6000000 INFO @ Wed, 22 Jul 2020 13:43:53: 16000000 INFO @ Wed, 22 Jul 2020 13:43:58: 12000000 INFO @ Wed, 22 Jul 2020 13:44:01: 17000000 INFO @ Wed, 22 Jul 2020 13:44:02: 7000000 INFO @ Wed, 22 Jul 2020 13:44:06: 13000000 INFO @ Wed, 22 Jul 2020 13:44:09: 18000000 INFO @ Wed, 22 Jul 2020 13:44:11: 8000000 INFO @ Wed, 22 Jul 2020 13:44:13: 14000000 INFO @ Wed, 22 Jul 2020 13:44:17: 19000000 INFO @ Wed, 22 Jul 2020 13:44:20: 9000000 INFO @ Wed, 22 Jul 2020 13:44:21: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:44:23: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:44:23: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:44:23: #1 total tags in treatment: 7528871 INFO @ Wed, 22 Jul 2020 13:44:23: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:44:23: #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 13:44:23: #1 tags after filtering in treatment: 5838009 INFO @ Wed, 22 Jul 2020 13:44:23: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 22 Jul 2020 13:44:23: #1 finished! INFO @ Wed, 22 Jul 2020 13:44:23: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:44:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:44:24: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:44:24: 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 13:44:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:44:29: 16000000 INFO @ Wed, 22 Jul 2020 13:44:29: 10000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:44:36: 17000000 INFO @ Wed, 22 Jul 2020 13:44:39: 11000000 INFO @ Wed, 22 Jul 2020 13:44:44: 18000000 INFO @ Wed, 22 Jul 2020 13:44:48: 12000000 INFO @ Wed, 22 Jul 2020 13:44:52: 19000000 INFO @ Wed, 22 Jul 2020 13:44:57: 13000000 INFO @ Wed, 22 Jul 2020 13:44:58: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:44:58: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:44:58: #1 total tags in treatment: 7528871 INFO @ Wed, 22 Jul 2020 13:44:58: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:44:58: #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 13:44:58: #1 tags after filtering in treatment: 5838009 INFO @ Wed, 22 Jul 2020 13:44:58: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 22 Jul 2020 13:44:58: #1 finished! INFO @ Wed, 22 Jul 2020 13:44:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:44:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:44:58: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:44:58: 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 13:44:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.10_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/SRX7217644/SRX7217644.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:45:06: 14000000 INFO @ Wed, 22 Jul 2020 13:45:14: 15000000 INFO @ Wed, 22 Jul 2020 13:45:23: 16000000 INFO @ Wed, 22 Jul 2020 13:45:32: 17000000 INFO @ Wed, 22 Jul 2020 13:45:40: 18000000 INFO @ Wed, 22 Jul 2020 13:45:49: 19000000 INFO @ Wed, 22 Jul 2020 13:45:56: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:45:56: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:45:56: #1 total tags in treatment: 7528871 INFO @ Wed, 22 Jul 2020 13:45:56: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:45:56: #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 13:45:56: #1 tags after filtering in treatment: 5838009 INFO @ Wed, 22 Jul 2020 13:45:56: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 22 Jul 2020 13:45:56: #1 finished! INFO @ Wed, 22 Jul 2020 13:45:56: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:45:56: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:45:56: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:45:56: 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 @ Wed, 22 Jul 2020 13:45:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.20_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/SRX7217644/SRX7217644.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217644/SRX7217644.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling