Job ID = 14522083 SRX = SRX9067231 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4168035 spots for SRR12580384/SRR12580384.sra Written 4168035 spots for SRR12580384/SRR12580384.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: 00:02:10 4168035 reads; of these: 4168035 (100.00%) were paired; of these: 1592186 (38.20%) aligned concordantly 0 times 2276493 (54.62%) aligned concordantly exactly 1 time 299356 (7.18%) aligned concordantly >1 times ---- 1592186 pairs aligned concordantly 0 times; of these: 33181 (2.08%) aligned discordantly 1 time ---- 1559005 pairs aligned 0 times concordantly or discordantly; of these: 3118010 mates make up the pairs; of these: 3045189 (97.66%) aligned 0 times 52257 (1.68%) aligned exactly 1 time 20564 (0.66%) aligned >1 times 63.47% overall alignment rate Time searching: 00:02:10 Overall time: 00:02:10 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] 1457238 / 2594749 = 0.5616 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 22:11:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.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 22:11:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:11:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:11:13: 1000000 INFO @ Sat, 15 Jan 2022 22:11:22: 2000000 INFO @ Sat, 15 Jan 2022 22:11:25: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 22:11:25: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 22:11:25: #1 total tags in treatment: 1124530 INFO @ Sat, 15 Jan 2022 22:11:25: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:11:25: #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 22:11:25: #1 tags after filtering in treatment: 967746 INFO @ Sat, 15 Jan 2022 22:11:25: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 15 Jan 2022 22:11:25: #1 finished! INFO @ Sat, 15 Jan 2022 22:11:25: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:11:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:11:25: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 22:11:25: Too few paired peaks (29) 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 22:11:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.05_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/SRX9067231/SRX9067231.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.05_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 22:11:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.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 22:11:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:11:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:11:43: 1000000 INFO @ Sat, 15 Jan 2022 22:11:51: 2000000 INFO @ Sat, 15 Jan 2022 22:11:53: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 22:11:53: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 22:11:53: #1 total tags in treatment: 1124530 INFO @ Sat, 15 Jan 2022 22:11:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:11:53: #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 22:11:53: #1 tags after filtering in treatment: 967746 INFO @ Sat, 15 Jan 2022 22:11:53: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 15 Jan 2022 22:11:53: #1 finished! INFO @ Sat, 15 Jan 2022 22:11:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:11:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:11:53: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 22:11:53: Too few paired peaks (29) 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 22:11:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.10_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/SRX9067231/SRX9067231.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.10_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 22:12:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.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 22:12:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:12:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:12:13: 1000000 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:12:23: 2000000 INFO @ Sat, 15 Jan 2022 22:12:26: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 22:12:26: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 22:12:26: #1 total tags in treatment: 1124530 INFO @ Sat, 15 Jan 2022 22:12:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:12:26: #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 22:12:26: #1 tags after filtering in treatment: 967746 INFO @ Sat, 15 Jan 2022 22:12:26: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 15 Jan 2022 22:12:26: #1 finished! INFO @ Sat, 15 Jan 2022 22:12:26: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:12:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:12:26: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 22:12:26: Too few paired peaks (29) 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 22:12:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.20_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/SRX9067231/SRX9067231.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067231/SRX9067231.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling