Job ID = 14522101 SRX = SRX9067137 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5035272 spots for SRR12580290/SRR12580290.sra Written 5035272 spots for SRR12580290/SRR12580290.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: 00:02:14 5035272 reads; of these: 5035272 (100.00%) were paired; of these: 717380 (14.25%) aligned concordantly 0 times 3732159 (74.12%) aligned concordantly exactly 1 time 585733 (11.63%) aligned concordantly >1 times ---- 717380 pairs aligned concordantly 0 times; of these: 282963 (39.44%) aligned discordantly 1 time ---- 434417 pairs aligned 0 times concordantly or discordantly; of these: 868834 mates make up the pairs; of these: 524573 (60.38%) aligned 0 times 225914 (26.00%) aligned exactly 1 time 118347 (13.62%) aligned >1 times 94.79% overall alignment rate Time searching: 00:02:14 Overall time: 00:02:14 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] 434024 / 4382368 = 0.0990 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 22:14:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.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 @ Sat, 15 Jan 2022 22:14:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:14:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:14:15: 1000000 INFO @ Sat, 15 Jan 2022 22:14:19: 2000000 INFO @ Sat, 15 Jan 2022 22:14:23: 3000000 INFO @ Sat, 15 Jan 2022 22:14:28: 4000000 INFO @ Sat, 15 Jan 2022 22:14:32: 5000000 INFO @ Sat, 15 Jan 2022 22:14:37: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 22:14:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.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 @ Sat, 15 Jan 2022 22:14:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:14:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:14:41: 7000000 INFO @ Sat, 15 Jan 2022 22:14:45: 1000000 INFO @ Sat, 15 Jan 2022 22:14:46: 8000000 INFO @ Sat, 15 Jan 2022 22:14:50: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 22:14:50: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 22:14:50: #1 total tags in treatment: 3885596 INFO @ Sat, 15 Jan 2022 22:14:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:14:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 22:14:50: #1 tags after filtering in treatment: 2722938 INFO @ Sat, 15 Jan 2022 22:14:50: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 22:14:50: #1 finished! INFO @ Sat, 15 Jan 2022 22:14:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:14:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:14:50: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 22:14:50: Too few paired peaks (17) 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 @ Sat, 15 Jan 2022 22:14:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.05_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/SRX9067137/SRX9067137.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:14:51: 2000000 INFO @ Sat, 15 Jan 2022 22:14:56: 3000000 INFO @ Sat, 15 Jan 2022 22:15:01: 4000000 INFO @ Sat, 15 Jan 2022 22:15:05: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 22:15:10: 6000000 INFO @ Sat, 15 Jan 2022 22:15:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.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 @ Sat, 15 Jan 2022 22:15:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:15:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:15:15: 7000000 INFO @ Sat, 15 Jan 2022 22:15:15: 1000000 INFO @ Sat, 15 Jan 2022 22:15:20: 8000000 INFO @ Sat, 15 Jan 2022 22:15:20: 2000000 INFO @ Sat, 15 Jan 2022 22:15:23: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 22:15:23: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 22:15:23: #1 total tags in treatment: 3885596 INFO @ Sat, 15 Jan 2022 22:15:23: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:15:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 22:15:24: #1 tags after filtering in treatment: 2722938 INFO @ Sat, 15 Jan 2022 22:15:24: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 22:15:24: #1 finished! INFO @ Sat, 15 Jan 2022 22:15:24: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:15:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:15:24: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 22:15:24: Too few paired peaks (17) 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 @ Sat, 15 Jan 2022 22:15:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.10_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/SRX9067137/SRX9067137.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:15:25: 3000000 INFO @ Sat, 15 Jan 2022 22:15:30: 4000000 INFO @ Sat, 15 Jan 2022 22:15:34: 5000000 INFO @ Sat, 15 Jan 2022 22:15:39: 6000000 INFO @ Sat, 15 Jan 2022 22:15:43: 7000000 INFO @ Sat, 15 Jan 2022 22:15:47: 8000000 INFO @ Sat, 15 Jan 2022 22:15:50: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 22:15:50: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 22:15:50: #1 total tags in treatment: 3885596 INFO @ Sat, 15 Jan 2022 22:15:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:15:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 22:15:50: #1 tags after filtering in treatment: 2722938 INFO @ Sat, 15 Jan 2022 22:15:50: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 22:15:50: #1 finished! INFO @ Sat, 15 Jan 2022 22:15:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:15:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:15:50: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 22:15:50: Too few paired peaks (17) 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 @ Sat, 15 Jan 2022 22:15:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.20_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/SRX9067137/SRX9067137.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067137/SRX9067137.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。