Job ID = 14521704 SRX = SRX9399154 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6356975 spots for SRR12935435/SRR12935435.sra Written 6356975 spots for SRR12935435/SRR12935435.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: 00:02:50 6356975 reads; of these: 6356975 (100.00%) were paired; of these: 717510 (11.29%) aligned concordantly 0 times 5079292 (79.90%) aligned concordantly exactly 1 time 560173 (8.81%) aligned concordantly >1 times ---- 717510 pairs aligned concordantly 0 times; of these: 84662 (11.80%) aligned discordantly 1 time ---- 632848 pairs aligned 0 times concordantly or discordantly; of these: 1265696 mates make up the pairs; of these: 1062376 (83.94%) aligned 0 times 161243 (12.74%) aligned exactly 1 time 42077 (3.32%) aligned >1 times 91.64% overall alignment rate Time searching: 00:02:50 Overall time: 00:02:50 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] 1110767 / 5715581 = 0.1943 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 21:32:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.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 21:32:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:32:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:32:18: 1000000 INFO @ Sat, 15 Jan 2022 21:32:23: 2000000 INFO @ Sat, 15 Jan 2022 21:32:28: 3000000 INFO @ Sat, 15 Jan 2022 21:32:33: 4000000 INFO @ Sat, 15 Jan 2022 21:32:38: 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 21:32:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.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 21:32:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:32:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:32:44: 6000000 INFO @ Sat, 15 Jan 2022 21:32:48: 1000000 INFO @ Sat, 15 Jan 2022 21:32:49: 7000000 INFO @ Sat, 15 Jan 2022 21:32:54: 2000000 INFO @ Sat, 15 Jan 2022 21:32:54: 8000000 INFO @ Sat, 15 Jan 2022 21:32:59: 3000000 INFO @ Sat, 15 Jan 2022 21:32:59: 9000000 INFO @ Sat, 15 Jan 2022 21:33:02: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:33:02: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:33:02: #1 total tags in treatment: 4534753 INFO @ Sat, 15 Jan 2022 21:33:02: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:33:02: #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 21:33:02: #1 tags after filtering in treatment: 3158759 INFO @ Sat, 15 Jan 2022 21:33:02: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:33:02: #1 finished! INFO @ Sat, 15 Jan 2022 21:33:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:33:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:33:02: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:33:02: Too few paired peaks (0) 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 21:33:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.05_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/SRX9399154/SRX9399154.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:33:05: 4000000 INFO @ Sat, 15 Jan 2022 21:33:10: 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 21:33:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.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 21:33:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:33:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:33:16: 6000000 INFO @ Sat, 15 Jan 2022 21:33:18: 1000000 INFO @ Sat, 15 Jan 2022 21:33:21: 7000000 INFO @ Sat, 15 Jan 2022 21:33:22: 2000000 INFO @ Sat, 15 Jan 2022 21:33:27: 8000000 INFO @ Sat, 15 Jan 2022 21:33:27: 3000000 INFO @ Sat, 15 Jan 2022 21:33:32: 4000000 INFO @ Sat, 15 Jan 2022 21:33:32: 9000000 INFO @ Sat, 15 Jan 2022 21:33:35: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:33:35: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:33:35: #1 total tags in treatment: 4534753 INFO @ Sat, 15 Jan 2022 21:33:35: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:33:35: #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 21:33:35: #1 tags after filtering in treatment: 3158759 INFO @ Sat, 15 Jan 2022 21:33:35: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:33:35: #1 finished! INFO @ Sat, 15 Jan 2022 21:33:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:33:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:33:35: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:33:35: Too few paired peaks (0) 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 21:33:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.10_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/SRX9399154/SRX9399154.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:33:36: 5000000 INFO @ Sat, 15 Jan 2022 21:33:41: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:33:45: 7000000 INFO @ Sat, 15 Jan 2022 21:33:49: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:33:54: 9000000 INFO @ Sat, 15 Jan 2022 21:33:56: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:33:56: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:33:56: #1 total tags in treatment: 4534753 INFO @ Sat, 15 Jan 2022 21:33:56: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:33:56: #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 21:33:56: #1 tags after filtering in treatment: 3158759 INFO @ Sat, 15 Jan 2022 21:33:56: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:33:56: #1 finished! INFO @ Sat, 15 Jan 2022 21:33:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:33:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:33:56: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:33:56: Too few paired peaks (0) 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 21:33:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.20_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/SRX9399154/SRX9399154.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399154/SRX9399154.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling