Job ID = 14521697 SRX = SRX9399037 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5440026 spots for SRR12935318/SRR12935318.sra Written 5440026 spots for SRR12935318/SRR12935318.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: 00:05:11 5440026 reads; of these: 5440026 (100.00%) were paired; of these: 526710 (9.68%) aligned concordantly 0 times 4284415 (78.76%) aligned concordantly exactly 1 time 628901 (11.56%) aligned concordantly >1 times ---- 526710 pairs aligned concordantly 0 times; of these: 166388 (31.59%) aligned discordantly 1 time ---- 360322 pairs aligned 0 times concordantly or discordantly; of these: 720644 mates make up the pairs; of these: 461842 (64.09%) aligned 0 times 186445 (25.87%) aligned exactly 1 time 72357 (10.04%) aligned >1 times 95.76% overall alignment rate Time searching: 00:05:11 Overall time: 00:05:11 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] 436714 / 4993140 = 0.0875 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 21:33:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.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 21:33:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:33:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:34:07: 1000000 INFO @ Sat, 15 Jan 2022 21:34:16: 2000000 INFO @ Sat, 15 Jan 2022 21:34:25: 3000000 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 21:34:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.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 21:34:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:34:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:34:35: 4000000 INFO @ Sat, 15 Jan 2022 21:34:40: 1000000 INFO @ Sat, 15 Jan 2022 21:34:44: 5000000 INFO @ Sat, 15 Jan 2022 21:34:52: 2000000 INFO @ Sat, 15 Jan 2022 21:34:54: 6000000 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 21:34:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.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 21:34:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:34:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:35:04: 7000000 INFO @ Sat, 15 Jan 2022 21:35:04: 3000000 INFO @ Sat, 15 Jan 2022 21:35:10: 1000000 INFO @ Sat, 15 Jan 2022 21:35:14: 8000000 INFO @ Sat, 15 Jan 2022 21:35:17: 4000000 INFO @ Sat, 15 Jan 2022 21:35:21: 2000000 INFO @ Sat, 15 Jan 2022 21:35:24: 9000000 INFO @ Sat, 15 Jan 2022 21:35:29: 5000000 INFO @ Sat, 15 Jan 2022 21:35:29: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:35:29: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:35:29: #1 total tags in treatment: 4478113 INFO @ Sat, 15 Jan 2022 21:35:29: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:35:29: #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 21:35:29: #1 tags after filtering in treatment: 3065417 INFO @ Sat, 15 Jan 2022 21:35:29: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:35:29: #1 finished! INFO @ Sat, 15 Jan 2022 21:35:29: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:35:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:35:29: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:35:29: Too few paired peaks (1) 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 21:35:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.05_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/SRX9399037/SRX9399037.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:35:32: 3000000 INFO @ Sat, 15 Jan 2022 21:35:40: 6000000 INFO @ Sat, 15 Jan 2022 21:35:43: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:35:52: 7000000 INFO @ Sat, 15 Jan 2022 21:35:55: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:36:03: 8000000 INFO @ Sat, 15 Jan 2022 21:36:06: 6000000 INFO @ Sat, 15 Jan 2022 21:36:14: 9000000 INFO @ Sat, 15 Jan 2022 21:36:17: 7000000 INFO @ Sat, 15 Jan 2022 21:36:20: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:36:20: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:36:20: #1 total tags in treatment: 4478113 INFO @ Sat, 15 Jan 2022 21:36:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:36:20: #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 21:36:20: #1 tags after filtering in treatment: 3065417 INFO @ Sat, 15 Jan 2022 21:36:20: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:36:20: #1 finished! INFO @ Sat, 15 Jan 2022 21:36:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:36:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:36:20: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:36:20: Too few paired peaks (1) 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 21:36:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:36:28: 8000000 INFO @ Sat, 15 Jan 2022 21:36:39: 9000000 INFO @ Sat, 15 Jan 2022 21:36:44: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:36:44: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:36:44: #1 total tags in treatment: 4478113 INFO @ Sat, 15 Jan 2022 21:36:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:36:44: #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 21:36:44: #1 tags after filtering in treatment: 3065417 INFO @ Sat, 15 Jan 2022 21:36:44: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:36:44: #1 finished! INFO @ Sat, 15 Jan 2022 21:36:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:36:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:36:44: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:36:44: Too few paired peaks (1) 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 21:36:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.20_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/SRX9399037/SRX9399037.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399037/SRX9399037.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling