Job ID = 7099685 SRX = SRX6911509 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 21965506 spots for SRR10191136/SRR10191136.sra Written 21965506 spots for SRR10191136/SRR10191136.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: 00:18:42 21965506 reads; of these: 21965506 (100.00%) were paired; of these: 9910238 (45.12%) aligned concordantly 0 times 8157480 (37.14%) aligned concordantly exactly 1 time 3897788 (17.75%) aligned concordantly >1 times ---- 9910238 pairs aligned concordantly 0 times; of these: 994631 (10.04%) aligned discordantly 1 time ---- 8915607 pairs aligned 0 times concordantly or discordantly; of these: 17831214 mates make up the pairs; of these: 16032631 (89.91%) aligned 0 times 806943 (4.53%) aligned exactly 1 time 991640 (5.56%) aligned >1 times 63.50% overall alignment rate Time searching: 00:18:42 Overall time: 00:18:42 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 12 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] 5285116 / 13045873 = 0.4051 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 12:34:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.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 12:34:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:34:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:34:47: 1000000 INFO @ Wed, 22 Jul 2020 12:34:53: 2000000 INFO @ Wed, 22 Jul 2020 12:34:59: 3000000 INFO @ Wed, 22 Jul 2020 12:35:05: 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 12:35:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.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 12:35:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:35:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:35:11: 5000000 INFO @ Wed, 22 Jul 2020 12:35:18: 1000000 INFO @ Wed, 22 Jul 2020 12:35:18: 6000000 INFO @ Wed, 22 Jul 2020 12:35:24: 2000000 INFO @ Wed, 22 Jul 2020 12:35:25: 7000000 INFO @ Wed, 22 Jul 2020 12:35:31: 3000000 INFO @ Wed, 22 Jul 2020 12:35:32: 8000000 INFO @ Wed, 22 Jul 2020 12:35:38: 4000000 INFO @ Wed, 22 Jul 2020 12:35:38: 9000000 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 12:35:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.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 12:35:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:35:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:35:45: 5000000 INFO @ Wed, 22 Jul 2020 12:35:45: 10000000 INFO @ Wed, 22 Jul 2020 12:35:49: 1000000 INFO @ Wed, 22 Jul 2020 12:35:52: 11000000 INFO @ Wed, 22 Jul 2020 12:35:52: 6000000 INFO @ Wed, 22 Jul 2020 12:35:58: 2000000 INFO @ Wed, 22 Jul 2020 12:35:59: 12000000 INFO @ Wed, 22 Jul 2020 12:36:00: 7000000 INFO @ Wed, 22 Jul 2020 12:36:06: 13000000 INFO @ Wed, 22 Jul 2020 12:36:07: 3000000 INFO @ Wed, 22 Jul 2020 12:36:07: 8000000 INFO @ Wed, 22 Jul 2020 12:36:13: 14000000 INFO @ Wed, 22 Jul 2020 12:36:14: 9000000 INFO @ Wed, 22 Jul 2020 12:36:15: 4000000 INFO @ Wed, 22 Jul 2020 12:36:20: 15000000 INFO @ Wed, 22 Jul 2020 12:36:21: 10000000 INFO @ Wed, 22 Jul 2020 12:36:24: 5000000 INFO @ Wed, 22 Jul 2020 12:36:27: 16000000 INFO @ Wed, 22 Jul 2020 12:36:28: 11000000 INFO @ Wed, 22 Jul 2020 12:36:32: 6000000 INFO @ Wed, 22 Jul 2020 12:36:35: 17000000 INFO @ Wed, 22 Jul 2020 12:36:35: 12000000 INFO @ Wed, 22 Jul 2020 12:36:37: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:36:37: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:36:37: #1 total tags in treatment: 6996697 INFO @ Wed, 22 Jul 2020 12:36:37: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:36:37: #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 12:36:37: #1 tags after filtering in treatment: 4189551 INFO @ Wed, 22 Jul 2020 12:36:37: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Jul 2020 12:36:37: #1 finished! INFO @ Wed, 22 Jul 2020 12:36:37: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:36:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:36:37: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 12:36:37: Too few paired peaks (28) 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 12:36:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.05_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/SRX6911509/SRX6911509.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 12:36:41: 7000000 INFO @ Wed, 22 Jul 2020 12:36:42: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 12:36:49: 8000000 INFO @ Wed, 22 Jul 2020 12:36:50: 14000000 INFO @ Wed, 22 Jul 2020 12:36:57: 15000000 INFO @ Wed, 22 Jul 2020 12:36:57: 9000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 12:37:04: 16000000 INFO @ Wed, 22 Jul 2020 12:37:05: 10000000 INFO @ Wed, 22 Jul 2020 12:37:11: 17000000 INFO @ Wed, 22 Jul 2020 12:37:13: 11000000 INFO @ Wed, 22 Jul 2020 12:37:13: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:37:13: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:37:13: #1 total tags in treatment: 6996697 INFO @ Wed, 22 Jul 2020 12:37:13: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:37:13: #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 12:37:14: #1 tags after filtering in treatment: 4189551 INFO @ Wed, 22 Jul 2020 12:37:14: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Jul 2020 12:37:14: #1 finished! INFO @ Wed, 22 Jul 2020 12:37:14: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:37:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:37:14: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 12:37:14: Too few paired peaks (28) 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 12:37:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.10_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/SRX6911509/SRX6911509.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 12:37:21: 12000000 INFO @ Wed, 22 Jul 2020 12:37:28: 13000000 INFO @ Wed, 22 Jul 2020 12:37:36: 14000000 INFO @ Wed, 22 Jul 2020 12:37:43: 15000000 INFO @ Wed, 22 Jul 2020 12:37:51: 16000000 INFO @ Wed, 22 Jul 2020 12:37:59: 17000000 INFO @ Wed, 22 Jul 2020 12:38:01: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:38:01: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:38:01: #1 total tags in treatment: 6996697 INFO @ Wed, 22 Jul 2020 12:38:01: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:38:01: #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 12:38:01: #1 tags after filtering in treatment: 4189551 INFO @ Wed, 22 Jul 2020 12:38:01: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Jul 2020 12:38:01: #1 finished! INFO @ Wed, 22 Jul 2020 12:38:01: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:38:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:38:01: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 12:38:01: Too few paired peaks (28) 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 12:38:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.20_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/SRX6911509/SRX6911509.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911509/SRX6911509.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling