Job ID = 14520129 SRX = SRX9390797 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5936949 spots for SRR12926692/SRR12926692.sra Written 5936949 spots for SRR12926692/SRR12926692.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: 00:04:43 5936949 reads; of these: 5936949 (100.00%) were paired; of these: 3221202 (54.26%) aligned concordantly 0 times 1950256 (32.85%) aligned concordantly exactly 1 time 765491 (12.89%) aligned concordantly >1 times ---- 3221202 pairs aligned concordantly 0 times; of these: 421108 (13.07%) aligned discordantly 1 time ---- 2800094 pairs aligned 0 times concordantly or discordantly; of these: 5600188 mates make up the pairs; of these: 2639845 (47.14%) aligned 0 times 986732 (17.62%) aligned exactly 1 time 1973611 (35.24%) aligned >1 times 77.77% overall alignment rate Time searching: 00:04:43 Overall time: 00:04:43 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] 853338 / 3122609 = 0.2733 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 18:30:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.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 18:30:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:30:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:30:08: 1000000 INFO @ Sat, 15 Jan 2022 18:30:14: 2000000 INFO @ Sat, 15 Jan 2022 18:30:19: 3000000 INFO @ Sat, 15 Jan 2022 18:30:24: 4000000 INFO @ Sat, 15 Jan 2022 18:30:29: 5000000 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 18:30:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.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 18:30:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:30:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:30:35: 6000000 INFO @ Sat, 15 Jan 2022 18:30:39: 1000000 INFO @ Sat, 15 Jan 2022 18:30:41: 7000000 INFO @ Sat, 15 Jan 2022 18:30:44: #1 tag size is determined as 83 bps INFO @ Sat, 15 Jan 2022 18:30:44: #1 tag size = 83 INFO @ Sat, 15 Jan 2022 18:30:44: #1 total tags in treatment: 1951295 INFO @ Sat, 15 Jan 2022 18:30:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:30:44: #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 18:30:44: #1 tags after filtering in treatment: 1367959 INFO @ Sat, 15 Jan 2022 18:30:44: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 18:30:44: #1 finished! INFO @ Sat, 15 Jan 2022 18:30:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:30:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:30:44: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 18:30:44: Too few paired peaks (34) 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 18:30:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.05_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/SRX9390797/SRX9390797.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:30:44: 2000000 INFO @ Sat, 15 Jan 2022 18:30:50: 3000000 INFO @ Sat, 15 Jan 2022 18:30:55: 4000000 INFO @ Sat, 15 Jan 2022 18:31:00: 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 18:31:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.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 18:31:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:31:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:31:06: 6000000 INFO @ Sat, 15 Jan 2022 18:31:08: 1000000 INFO @ Sat, 15 Jan 2022 18:31:12: 7000000 INFO @ Sat, 15 Jan 2022 18:31:14: 2000000 INFO @ Sat, 15 Jan 2022 18:31:15: #1 tag size is determined as 83 bps INFO @ Sat, 15 Jan 2022 18:31:15: #1 tag size = 83 INFO @ Sat, 15 Jan 2022 18:31:15: #1 total tags in treatment: 1951295 INFO @ Sat, 15 Jan 2022 18:31:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:31:15: #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 18:31:15: #1 tags after filtering in treatment: 1367959 INFO @ Sat, 15 Jan 2022 18:31:15: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 18:31:15: #1 finished! INFO @ Sat, 15 Jan 2022 18:31:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:31:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:31:15: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 18:31:15: Too few paired peaks (34) 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 18:31:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.10_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/SRX9390797/SRX9390797.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:31:19: 3000000 INFO @ Sat, 15 Jan 2022 18:31:23: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:31:27: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:31:32: 6000000 INFO @ Sat, 15 Jan 2022 18:31:36: 7000000 INFO @ Sat, 15 Jan 2022 18:31:39: #1 tag size is determined as 83 bps INFO @ Sat, 15 Jan 2022 18:31:39: #1 tag size = 83 INFO @ Sat, 15 Jan 2022 18:31:39: #1 total tags in treatment: 1951295 INFO @ Sat, 15 Jan 2022 18:31:39: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:31:39: #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 18:31:39: #1 tags after filtering in treatment: 1367959 INFO @ Sat, 15 Jan 2022 18:31:39: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 18:31:39: #1 finished! INFO @ Sat, 15 Jan 2022 18:31:39: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:31:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:31:39: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 18:31:39: Too few paired peaks (34) 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 18:31:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.20_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/SRX9390797/SRX9390797.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390797/SRX9390797.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling