Job ID = 7110065 SRX = SRX8036514 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13974542 spots for SRR11458961/SRR11458961.sra Written 13974542 spots for SRR11458961/SRR11458961.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: 00:17:52 13974542 reads; of these: 13974542 (100.00%) were paired; of these: 596092 (4.27%) aligned concordantly 0 times 11166770 (79.91%) aligned concordantly exactly 1 time 2211680 (15.83%) aligned concordantly >1 times ---- 596092 pairs aligned concordantly 0 times; of these: 157434 (26.41%) aligned discordantly 1 time ---- 438658 pairs aligned 0 times concordantly or discordantly; of these: 877316 mates make up the pairs; of these: 736104 (83.90%) aligned 0 times 68886 (7.85%) aligned exactly 1 time 72326 (8.24%) aligned >1 times 97.37% overall alignment rate Time searching: 00:17:52 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] 2312495 / 13510053 = 0.1712 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 14:21:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.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 14:21:35: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:21:35: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:21:44: 1000000 INFO @ Wed, 22 Jul 2020 14:21:53: 2000000 INFO @ Wed, 22 Jul 2020 14:22:03: 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 14:22:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.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 14:22:05: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:22:05: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:22:13: 4000000 INFO @ Wed, 22 Jul 2020 14:22:16: 1000000 INFO @ Wed, 22 Jul 2020 14:22:24: 5000000 INFO @ Wed, 22 Jul 2020 14:22:27: 2000000 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 14:22:34: 6000000 INFO @ Wed, 22 Jul 2020 14:22:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.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 14:22:35: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:22:35: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:22:38: 3000000 INFO @ Wed, 22 Jul 2020 14:22:45: 7000000 INFO @ Wed, 22 Jul 2020 14:22:46: 1000000 INFO @ Wed, 22 Jul 2020 14:22:50: 4000000 INFO @ Wed, 22 Jul 2020 14:22:56: 2000000 INFO @ Wed, 22 Jul 2020 14:22:57: 8000000 INFO @ Wed, 22 Jul 2020 14:23:01: 5000000 INFO @ Wed, 22 Jul 2020 14:23:07: 3000000 INFO @ Wed, 22 Jul 2020 14:23:08: 9000000 INFO @ Wed, 22 Jul 2020 14:23:12: 6000000 INFO @ Wed, 22 Jul 2020 14:23:17: 4000000 INFO @ Wed, 22 Jul 2020 14:23:19: 10000000 INFO @ Wed, 22 Jul 2020 14:23:23: 7000000 INFO @ Wed, 22 Jul 2020 14:23:27: 5000000 INFO @ Wed, 22 Jul 2020 14:23:30: 11000000 INFO @ Wed, 22 Jul 2020 14:23:35: 8000000 INFO @ Wed, 22 Jul 2020 14:23:38: 6000000 INFO @ Wed, 22 Jul 2020 14:23:40: 12000000 INFO @ Wed, 22 Jul 2020 14:23:46: 9000000 INFO @ Wed, 22 Jul 2020 14:23:48: 7000000 INFO @ Wed, 22 Jul 2020 14:23:50: 13000000 INFO @ Wed, 22 Jul 2020 14:23:57: 10000000 INFO @ Wed, 22 Jul 2020 14:23:58: 8000000 INFO @ Wed, 22 Jul 2020 14:24:00: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:24:08: 9000000 INFO @ Wed, 22 Jul 2020 14:24:08: 11000000 INFO @ Wed, 22 Jul 2020 14:24:12: 15000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:24:18: 10000000 INFO @ Wed, 22 Jul 2020 14:24:18: 12000000 INFO @ Wed, 22 Jul 2020 14:24:23: 16000000 INFO @ Wed, 22 Jul 2020 14:24:28: 13000000 INFO @ Wed, 22 Jul 2020 14:24:29: 11000000 INFO @ Wed, 22 Jul 2020 14:24:34: 17000000 INFO @ Wed, 22 Jul 2020 14:24:39: 14000000 INFO @ Wed, 22 Jul 2020 14:24:41: 12000000 INFO @ Wed, 22 Jul 2020 14:24:44: 18000000 INFO @ Wed, 22 Jul 2020 14:24:50: 15000000 INFO @ Wed, 22 Jul 2020 14:24:53: 13000000 INFO @ Wed, 22 Jul 2020 14:24:55: 19000000 INFO @ Wed, 22 Jul 2020 14:25:01: 16000000 INFO @ Wed, 22 Jul 2020 14:25:04: 14000000 INFO @ Wed, 22 Jul 2020 14:25:06: 20000000 INFO @ Wed, 22 Jul 2020 14:25:13: 17000000 INFO @ Wed, 22 Jul 2020 14:25:14: 15000000 INFO @ Wed, 22 Jul 2020 14:25:17: 21000000 INFO @ Wed, 22 Jul 2020 14:25:24: 18000000 INFO @ Wed, 22 Jul 2020 14:25:25: 16000000 INFO @ Wed, 22 Jul 2020 14:25:28: 22000000 INFO @ Wed, 22 Jul 2020 14:25:34: 19000000 INFO @ Wed, 22 Jul 2020 14:25:35: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:25:35: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:25:35: #1 total tags in treatment: 11079716 INFO @ Wed, 22 Jul 2020 14:25:35: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:25:35: #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 14:25:35: 17000000 INFO @ Wed, 22 Jul 2020 14:25:35: #1 tags after filtering in treatment: 7738208 INFO @ Wed, 22 Jul 2020 14:25:35: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 14:25:35: #1 finished! INFO @ Wed, 22 Jul 2020 14:25:35: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:25:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:25:35: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:25:35: 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 14:25:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.05_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/SRX8036514/SRX8036514.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:25:46: 18000000 INFO @ Wed, 22 Jul 2020 14:25:46: 20000000 INFO @ Wed, 22 Jul 2020 14:25:57: 19000000 INFO @ Wed, 22 Jul 2020 14:25:58: 21000000 INFO @ Wed, 22 Jul 2020 14:26:08: 20000000 INFO @ Wed, 22 Jul 2020 14:26:09: 22000000 INFO @ Wed, 22 Jul 2020 14:26:16: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:26:16: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:26:16: #1 total tags in treatment: 11079716 INFO @ Wed, 22 Jul 2020 14:26:16: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:26:16: #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 14:26:16: #1 tags after filtering in treatment: 7738208 INFO @ Wed, 22 Jul 2020 14:26:16: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 14:26:16: #1 finished! INFO @ Wed, 22 Jul 2020 14:26:16: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:26:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:26:17: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:26:17: 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 14:26:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.10_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/SRX8036514/SRX8036514.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:26:18: 21000000 INFO @ Wed, 22 Jul 2020 14:26:27: 22000000 INFO @ Wed, 22 Jul 2020 14:26:32: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:26:32: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:26:32: #1 total tags in treatment: 11079716 INFO @ Wed, 22 Jul 2020 14:26:32: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:26:32: #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 14:26:32: #1 tags after filtering in treatment: 7738208 INFO @ Wed, 22 Jul 2020 14:26:32: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 14:26:32: #1 finished! INFO @ Wed, 22 Jul 2020 14:26:32: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:26:32: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:26:32: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:26:32: 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 14:26:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.20_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/SRX8036514/SRX8036514.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036514/SRX8036514.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling