Job ID = 14520125 SRX = SRX9390796 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4183093 spots for SRR12926691/SRR12926691.sra Written 4183093 spots for SRR12926691/SRR12926691.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: 00:03:11 4183093 reads; of these: 4183093 (100.00%) were paired; of these: 2723838 (65.12%) aligned concordantly 0 times 1038378 (24.82%) aligned concordantly exactly 1 time 420877 (10.06%) aligned concordantly >1 times ---- 2723838 pairs aligned concordantly 0 times; of these: 321632 (11.81%) aligned discordantly 1 time ---- 2402206 pairs aligned 0 times concordantly or discordantly; of these: 4804412 mates make up the pairs; of these: 2260616 (47.05%) aligned 0 times 849549 (17.68%) aligned exactly 1 time 1694247 (35.26%) aligned >1 times 72.98% overall alignment rate Time searching: 00:03:11 Overall time: 00:03:11 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] 407222 / 1769908 = 0.2301 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 18:28:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.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 18:28:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:28:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:28:19: 1000000 INFO @ Sat, 15 Jan 2022 18:28:23: 2000000 INFO @ Sat, 15 Jan 2022 18:28:28: 3000000 INFO @ Sat, 15 Jan 2022 18:28:32: 4000000 INFO @ Sat, 15 Jan 2022 18:28:37: 5000000 INFO @ Sat, 15 Jan 2022 18:28:38: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 18:28:38: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 18:28:38: #1 total tags in treatment: 1109829 INFO @ Sat, 15 Jan 2022 18:28:38: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:28:38: #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 18:28:38: #1 tags after filtering in treatment: 836451 INFO @ Sat, 15 Jan 2022 18:28:38: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 18:28:38: #1 finished! INFO @ Sat, 15 Jan 2022 18:28:38: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:28:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:28:38: #2 number of paired peaks: 52 WARNING @ Sat, 15 Jan 2022 18:28:38: Too few paired peaks (52) 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 18:28:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.05_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/SRX9390796/SRX9390796.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 18:28:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.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 18:28:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:28:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:28:50: 1000000 INFO @ Sat, 15 Jan 2022 18:28:55: 2000000 INFO @ Sat, 15 Jan 2022 18:29:00: 3000000 INFO @ Sat, 15 Jan 2022 18:29:05: 4000000 INFO @ Sat, 15 Jan 2022 18:29:10: 5000000 INFO @ Sat, 15 Jan 2022 18:29:11: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 18:29:11: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 18:29:11: #1 total tags in treatment: 1109829 INFO @ Sat, 15 Jan 2022 18:29:11: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:29:11: #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 18:29:11: #1 tags after filtering in treatment: 836451 INFO @ Sat, 15 Jan 2022 18:29:11: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 18:29:11: #1 finished! INFO @ Sat, 15 Jan 2022 18:29:11: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:29:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:29:11: #2 number of paired peaks: 52 WARNING @ Sat, 15 Jan 2022 18:29:11: Too few paired peaks (52) 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 18:29:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.10_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/SRX9390796/SRX9390796.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 18:29:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.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 18:29:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:29:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:29:19: 1000000 INFO @ Sat, 15 Jan 2022 18:29:24: 2000000 INFO @ Sat, 15 Jan 2022 18:29:28: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:29:33: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:29:38: 5000000 INFO @ Sat, 15 Jan 2022 18:29:39: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 18:29:39: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 18:29:39: #1 total tags in treatment: 1109829 INFO @ Sat, 15 Jan 2022 18:29:39: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:29:39: #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 18:29:39: #1 tags after filtering in treatment: 836451 INFO @ Sat, 15 Jan 2022 18:29:39: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 18:29:39: #1 finished! INFO @ Sat, 15 Jan 2022 18:29:39: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:29:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:29:39: #2 number of paired peaks: 52 WARNING @ Sat, 15 Jan 2022 18:29:39: Too few paired peaks (52) 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 18:29:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.20_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/SRX9390796/SRX9390796.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390796/SRX9390796.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling