Job ID = 7110305 SRX = SRX8036519 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 11330604 spots for SRR11458966/SRR11458966.sra Written 11330604 spots for SRR11458966/SRR11458966.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: 00:04:27 11330604 reads; of these: 11330604 (100.00%) were paired; of these: 9417928 (83.12%) aligned concordantly 0 times 1671037 (14.75%) aligned concordantly exactly 1 time 241639 (2.13%) aligned concordantly >1 times ---- 9417928 pairs aligned concordantly 0 times; of these: 44467 (0.47%) aligned discordantly 1 time ---- 9373461 pairs aligned 0 times concordantly or discordantly; of these: 18746922 mates make up the pairs; of these: 18715573 (99.83%) aligned 0 times 13395 (0.07%) aligned exactly 1 time 17954 (0.10%) aligned >1 times 17.41% overall alignment rate Time searching: 00:04:27 Overall time: 00:04:27 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] 251017 / 1955177 = 0.1284 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 14:03:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.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 14:03:22: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:03:22: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:03:30: 1000000 INFO @ Wed, 22 Jul 2020 14:03:38: 2000000 INFO @ Wed, 22 Jul 2020 14:03:46: 3000000 INFO @ Wed, 22 Jul 2020 14:03:49: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:03:49: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:03:49: #1 total tags in treatment: 1665776 INFO @ Wed, 22 Jul 2020 14:03:49: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:03:49: #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 14:03:49: #1 tags after filtering in treatment: 1506678 INFO @ Wed, 22 Jul 2020 14:03:49: #1 Redundant rate of treatment: 0.10 INFO @ Wed, 22 Jul 2020 14:03:49: #1 finished! INFO @ Wed, 22 Jul 2020 14:03:49: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:03:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:03:49: #2 number of paired peaks: 42 WARNING @ Wed, 22 Jul 2020 14:03:49: Too few paired peaks (42) 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 14:03:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.05_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/SRX8036519/SRX8036519.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 14:03:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.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 14:03:52: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:03:52: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:04:01: 1000000 INFO @ Wed, 22 Jul 2020 14:04:10: 2000000 INFO @ Wed, 22 Jul 2020 14:04:18: 3000000 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 14:04:22: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:04:22: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:04:22: #1 total tags in treatment: 1665776 INFO @ Wed, 22 Jul 2020 14:04:22: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:04:22: #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 14:04:22: #1 tags after filtering in treatment: 1506678 INFO @ Wed, 22 Jul 2020 14:04:22: #1 Redundant rate of treatment: 0.10 INFO @ Wed, 22 Jul 2020 14:04:22: #1 finished! INFO @ Wed, 22 Jul 2020 14:04:22: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:04:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:04:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.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 14:04:22: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:04:22: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:04:22: #2 number of paired peaks: 42 WARNING @ Wed, 22 Jul 2020 14:04:22: Too few paired peaks (42) 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 14:04:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.10_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/SRX8036519/SRX8036519.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:04:30: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:04:39: 2000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:04:47: 3000000 INFO @ Wed, 22 Jul 2020 14:04:51: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:04:51: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:04:51: #1 total tags in treatment: 1665776 INFO @ Wed, 22 Jul 2020 14:04:51: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:04:51: #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 14:04:51: #1 tags after filtering in treatment: 1506678 INFO @ Wed, 22 Jul 2020 14:04:51: #1 Redundant rate of treatment: 0.10 INFO @ Wed, 22 Jul 2020 14:04:51: #1 finished! INFO @ Wed, 22 Jul 2020 14:04:51: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:04:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:04:51: #2 number of paired peaks: 42 WARNING @ Wed, 22 Jul 2020 14:04:51: Too few paired peaks (42) 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 14:04:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.20_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/SRX8036519/SRX8036519.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036519/SRX8036519.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling