Job ID = 7102658 SRX = SRX6911520 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5467183 spots for SRR10191163/SRR10191163.sra Written 5467183 spots for SRR10191163/SRR10191163.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: 00:06:23 5467183 reads; of these: 5467183 (100.00%) were paired; of these: 1801070 (32.94%) aligned concordantly 0 times 2798329 (51.18%) aligned concordantly exactly 1 time 867784 (15.87%) aligned concordantly >1 times ---- 1801070 pairs aligned concordantly 0 times; of these: 481729 (26.75%) aligned discordantly 1 time ---- 1319341 pairs aligned 0 times concordantly or discordantly; of these: 2638682 mates make up the pairs; of these: 2196154 (83.23%) aligned 0 times 182971 (6.93%) aligned exactly 1 time 259557 (9.84%) aligned >1 times 79.92% overall alignment rate Time searching: 00:06:23 Overall time: 00:06:23 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_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] 567301 / 4147056 = 0.1368 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 12:29:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.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 12:29:32: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:29:32: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:29:39: 1000000 INFO @ Wed, 22 Jul 2020 12:29:46: 2000000 INFO @ Wed, 22 Jul 2020 12:29:53: 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 12:30:00: 4000000 INFO @ Wed, 22 Jul 2020 12:30:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.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 12:30:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:30:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:30:08: 5000000 INFO @ Wed, 22 Jul 2020 12:30:10: 1000000 INFO @ Wed, 22 Jul 2020 12:30:16: 6000000 INFO @ Wed, 22 Jul 2020 12:30:18: 2000000 INFO @ Wed, 22 Jul 2020 12:30:24: 7000000 INFO @ Wed, 22 Jul 2020 12:30:26: 3000000 INFO @ Wed, 22 Jul 2020 12:30:29: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:30:29: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:30:29: #1 total tags in treatment: 3140922 INFO @ Wed, 22 Jul 2020 12:30:29: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:30:29: #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 12:30:29: #1 tags after filtering in treatment: 2377610 INFO @ Wed, 22 Jul 2020 12:30:29: #1 Redundant rate of treatment: 0.24 INFO @ Wed, 22 Jul 2020 12:30:29: #1 finished! INFO @ Wed, 22 Jul 2020 12:30:29: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:30:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:30:29: #2 number of paired peaks: 62 WARNING @ Wed, 22 Jul 2020 12:30:29: Too few paired peaks (62) 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 12:30:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.05_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/SRX6911520/SRX6911520.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 12:30:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.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 12:30:32: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:30:32: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:30:34: 4000000 INFO @ Wed, 22 Jul 2020 12:30:40: 1000000 INFO @ Wed, 22 Jul 2020 12:30:42: 5000000 INFO @ Wed, 22 Jul 2020 12:30:49: 2000000 INFO @ Wed, 22 Jul 2020 12:30:50: 6000000 INFO @ Wed, 22 Jul 2020 12:30:57: 3000000 INFO @ Wed, 22 Jul 2020 12:30:58: 7000000 INFO @ Wed, 22 Jul 2020 12:31:03: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:31:03: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:31:03: #1 total tags in treatment: 3140922 INFO @ Wed, 22 Jul 2020 12:31:03: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:31:03: #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 12:31:03: #1 tags after filtering in treatment: 2377610 INFO @ Wed, 22 Jul 2020 12:31:03: #1 Redundant rate of treatment: 0.24 INFO @ Wed, 22 Jul 2020 12:31:03: #1 finished! INFO @ Wed, 22 Jul 2020 12:31:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:31:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:31:03: #2 number of paired peaks: 62 WARNING @ Wed, 22 Jul 2020 12:31:03: Too few paired peaks (62) 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 12:31:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.10_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/SRX6911520/SRX6911520.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.10_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 12:31:05: 4000000 INFO @ Wed, 22 Jul 2020 12:31:12: 5000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 12:31:19: 6000000 INFO @ Wed, 22 Jul 2020 12:31:27: 7000000 INFO @ Wed, 22 Jul 2020 12:31:31: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:31:31: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:31:31: #1 total tags in treatment: 3140922 INFO @ Wed, 22 Jul 2020 12:31:31: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:31:31: #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 12:31:31: #1 tags after filtering in treatment: 2377610 INFO @ Wed, 22 Jul 2020 12:31:31: #1 Redundant rate of treatment: 0.24 INFO @ Wed, 22 Jul 2020 12:31:31: #1 finished! INFO @ Wed, 22 Jul 2020 12:31:31: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:31:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:31:31: #2 number of paired peaks: 62 WARNING @ Wed, 22 Jul 2020 12:31:31: Too few paired peaks (62) 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 12:31:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.20_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/SRX6911520/SRX6911520.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911520/SRX6911520.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling