Job ID = 14521670 SRX = SRX9399140 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8429992 spots for SRR12935421/SRR12935421.sra Written 8429992 spots for SRR12935421/SRR12935421.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: 00:03:45 8429992 reads; of these: 8429992 (100.00%) were paired; of these: 1159397 (13.75%) aligned concordantly 0 times 6589488 (78.17%) aligned concordantly exactly 1 time 681107 (8.08%) aligned concordantly >1 times ---- 1159397 pairs aligned concordantly 0 times; of these: 156242 (13.48%) aligned discordantly 1 time ---- 1003155 pairs aligned 0 times concordantly or discordantly; of these: 2006310 mates make up the pairs; of these: 1679942 (83.73%) aligned 0 times 252116 (12.57%) aligned exactly 1 time 74252 (3.70%) aligned >1 times 90.04% overall alignment rate Time searching: 00:03:45 Overall time: 00:03:45 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_sort_core] merging from 8 files... [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] 1336499 / 7413109 = 0.1803 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 21:29:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.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 21:29:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:29:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:29:43: 1000000 INFO @ Sat, 15 Jan 2022 21:29:47: 2000000 INFO @ Sat, 15 Jan 2022 21:29:50: 3000000 INFO @ Sat, 15 Jan 2022 21:29:54: 4000000 INFO @ Sat, 15 Jan 2022 21:29:58: 5000000 INFO @ Sat, 15 Jan 2022 21:30:02: 6000000 INFO @ Sat, 15 Jan 2022 21:30:05: 7000000 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 21:30:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.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 21:30:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:30:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:30:09: 8000000 INFO @ Sat, 15 Jan 2022 21:30:13: 9000000 INFO @ Sat, 15 Jan 2022 21:30:13: 1000000 INFO @ Sat, 15 Jan 2022 21:30:17: 10000000 INFO @ Sat, 15 Jan 2022 21:30:17: 2000000 INFO @ Sat, 15 Jan 2022 21:30:21: 11000000 INFO @ Sat, 15 Jan 2022 21:30:21: 3000000 INFO @ Sat, 15 Jan 2022 21:30:25: 12000000 INFO @ Sat, 15 Jan 2022 21:30:25: 4000000 INFO @ Sat, 15 Jan 2022 21:30:27: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:30:27: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:30:27: #1 total tags in treatment: 5948411 INFO @ Sat, 15 Jan 2022 21:30:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:30:27: #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 21:30:27: #1 tags after filtering in treatment: 3840015 INFO @ Sat, 15 Jan 2022 21:30:27: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:30:27: #1 finished! INFO @ Sat, 15 Jan 2022 21:30:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:30:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:30:27: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:30:27: 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 21:30:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.05_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/SRX9399140/SRX9399140.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:30:29: 5000000 INFO @ Sat, 15 Jan 2022 21:30:33: 6000000 INFO @ Sat, 15 Jan 2022 21:30:36: 7000000 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 21:30:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.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 21:30:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:30:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:30:40: 8000000 INFO @ Sat, 15 Jan 2022 21:30:44: 1000000 INFO @ Sat, 15 Jan 2022 21:30:44: 9000000 INFO @ Sat, 15 Jan 2022 21:30:48: 10000000 INFO @ Sat, 15 Jan 2022 21:30:48: 2000000 INFO @ Sat, 15 Jan 2022 21:30:52: 11000000 INFO @ Sat, 15 Jan 2022 21:30:53: 3000000 INFO @ Sat, 15 Jan 2022 21:30:56: 12000000 INFO @ Sat, 15 Jan 2022 21:30:58: 4000000 INFO @ Sat, 15 Jan 2022 21:30:58: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:30:58: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:30:58: #1 total tags in treatment: 5948411 INFO @ Sat, 15 Jan 2022 21:30:58: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:30:58: #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 21:30:58: #1 tags after filtering in treatment: 3840015 INFO @ Sat, 15 Jan 2022 21:30:58: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:30:58: #1 finished! INFO @ Sat, 15 Jan 2022 21:30:58: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:30:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:30:58: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:30:58: 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 21:30:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.10_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/SRX9399140/SRX9399140.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:31:02: 5000000 INFO @ Sat, 15 Jan 2022 21:31:07: 6000000 INFO @ Sat, 15 Jan 2022 21:31:11: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:31:16: 8000000 INFO @ Sat, 15 Jan 2022 21:31:20: 9000000 INFO @ Sat, 15 Jan 2022 21:31:24: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:31:29: 11000000 INFO @ Sat, 15 Jan 2022 21:31:34: 12000000 INFO @ Sat, 15 Jan 2022 21:31:36: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:31:36: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:31:36: #1 total tags in treatment: 5948411 INFO @ Sat, 15 Jan 2022 21:31:36: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:31:36: #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 21:31:36: #1 tags after filtering in treatment: 3840015 INFO @ Sat, 15 Jan 2022 21:31:36: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:31:36: #1 finished! INFO @ Sat, 15 Jan 2022 21:31:36: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:31:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:31:36: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:31:36: 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 21:31:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.20_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/SRX9399140/SRX9399140.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399140/SRX9399140.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling