Job ID = 14520545 SRX = SRX3659077 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4118870 spots for SRR6682792/SRR6682792.sra Written 4118870 spots for SRR6682792/SRR6682792.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: 00:03:46 4118870 reads; of these: 4118870 (100.00%) were paired; of these: 100089 (2.43%) aligned concordantly 0 times 3569677 (86.67%) aligned concordantly exactly 1 time 449104 (10.90%) aligned concordantly >1 times ---- 100089 pairs aligned concordantly 0 times; of these: 23487 (23.47%) aligned discordantly 1 time ---- 76602 pairs aligned 0 times concordantly or discordantly; of these: 153204 mates make up the pairs; of these: 100000 (65.27%) aligned 0 times 41551 (27.12%) aligned exactly 1 time 11653 (7.61%) aligned >1 times 98.79% overall alignment rate Time searching: 00:03:46 Overall time: 00:03:46 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] 272287 / 3987778 = 0.0683 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 19:29:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.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 19:29:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:29:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:29:52: 1000000 INFO @ Sat, 15 Jan 2022 19:29:59: 2000000 INFO @ Sat, 15 Jan 2022 19:30:05: 3000000 INFO @ Sat, 15 Jan 2022 19:30:12: 4000000 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 19:30:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.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 19:30:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:30:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:30:18: 5000000 INFO @ Sat, 15 Jan 2022 19:30:22: 1000000 INFO @ Sat, 15 Jan 2022 19:30:24: 6000000 INFO @ Sat, 15 Jan 2022 19:30:28: 2000000 INFO @ Sat, 15 Jan 2022 19:30:30: 7000000 INFO @ Sat, 15 Jan 2022 19:30:33: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:30:33: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:30:33: #1 total tags in treatment: 3746625 INFO @ Sat, 15 Jan 2022 19:30:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:30:33: #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 19:30:33: #1 tags after filtering in treatment: 2720877 INFO @ Sat, 15 Jan 2022 19:30:33: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 19:30:33: #1 finished! INFO @ Sat, 15 Jan 2022 19:30:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:30:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:30:33: 3000000 INFO @ Sat, 15 Jan 2022 19:30:34: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 19:30:34: 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 19:30:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.05_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/SRX3659077/SRX3659077.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:30:39: 4000000 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 19:30:45: 5000000 INFO @ Sat, 15 Jan 2022 19:30:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.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 19:30:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:30:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:30:51: 6000000 INFO @ Sat, 15 Jan 2022 19:30:52: 1000000 INFO @ Sat, 15 Jan 2022 19:30:57: 7000000 INFO @ Sat, 15 Jan 2022 19:30:58: 2000000 INFO @ Sat, 15 Jan 2022 19:31:00: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:31:00: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:31:00: #1 total tags in treatment: 3746625 INFO @ Sat, 15 Jan 2022 19:31:00: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:31:00: #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 19:31:00: #1 tags after filtering in treatment: 2720877 INFO @ Sat, 15 Jan 2022 19:31:00: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 19:31:00: #1 finished! INFO @ Sat, 15 Jan 2022 19:31:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:31:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:31:01: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 19:31:01: 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 19:31:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.10_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/SRX3659077/SRX3659077.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:31:03: 3000000 INFO @ Sat, 15 Jan 2022 19:31:09: 4000000 INFO @ Sat, 15 Jan 2022 19:31:15: 5000000 INFO @ Sat, 15 Jan 2022 19:31:20: 6000000 INFO @ Sat, 15 Jan 2022 19:31:26: 7000000 INFO @ Sat, 15 Jan 2022 19:31:29: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:31:29: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:31:29: #1 total tags in treatment: 3746625 INFO @ Sat, 15 Jan 2022 19:31:29: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:31:29: #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 19:31:29: #1 tags after filtering in treatment: 2720877 INFO @ Sat, 15 Jan 2022 19:31:29: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 19:31:29: #1 finished! INFO @ Sat, 15 Jan 2022 19:31:29: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:31:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:31:30: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 19:31:30: 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 19:31:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.20_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/SRX3659077/SRX3659077.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659077/SRX3659077.20_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。