Job ID = 14521514 SRX = SRX10468492 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4595807 spots for SRR14094803/SRR14094803.sra Written 4595807 spots for SRR14094803/SRR14094803.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: 00:02:28 4595807 reads; of these: 4595807 (100.00%) were paired; of these: 320542 (6.97%) aligned concordantly 0 times 3696133 (80.42%) aligned concordantly exactly 1 time 579132 (12.60%) aligned concordantly >1 times ---- 320542 pairs aligned concordantly 0 times; of these: 47975 (14.97%) aligned discordantly 1 time ---- 272567 pairs aligned 0 times concordantly or discordantly; of these: 545134 mates make up the pairs; of these: 477176 (87.53%) aligned 0 times 41253 (7.57%) aligned exactly 1 time 26705 (4.90%) aligned >1 times 94.81% overall alignment rate Time searching: 00:02:28 Overall time: 00:02:28 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] 90897 / 4279016 = 0.0212 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 21:11:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.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 21:11:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:11:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:11:15: 1000000 INFO @ Sat, 15 Jan 2022 21:11:20: 2000000 INFO @ Sat, 15 Jan 2022 21:11:25: 3000000 INFO @ Sat, 15 Jan 2022 21:11:31: 4000000 INFO @ Sat, 15 Jan 2022 21:11:36: 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 21:11:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.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 21:11:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:11:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:11:42: 6000000 INFO @ Sat, 15 Jan 2022 21:11:45: 1000000 INFO @ Sat, 15 Jan 2022 21:11:47: 7000000 INFO @ Sat, 15 Jan 2022 21:11:51: 2000000 INFO @ Sat, 15 Jan 2022 21:11:53: 8000000 INFO @ Sat, 15 Jan 2022 21:11:55: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:11:55: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:11:55: #1 total tags in treatment: 4184413 INFO @ Sat, 15 Jan 2022 21:11:55: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:11:55: #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 21:11:56: #1 tags after filtering in treatment: 3579219 INFO @ Sat, 15 Jan 2022 21:11:56: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 15 Jan 2022 21:11:56: #1 finished! INFO @ Sat, 15 Jan 2022 21:11:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:11:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:11:56: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:11:56: Too few paired peaks (28) 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 21:11:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.05_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/SRX10468492/SRX10468492.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:11:56: 3000000 INFO @ Sat, 15 Jan 2022 21:12:02: 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 21:12:08: 5000000 INFO @ Sat, 15 Jan 2022 21:12:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.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 21:12:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:12:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:12:13: 6000000 INFO @ Sat, 15 Jan 2022 21:12:15: 1000000 INFO @ Sat, 15 Jan 2022 21:12:19: 7000000 INFO @ Sat, 15 Jan 2022 21:12:21: 2000000 INFO @ Sat, 15 Jan 2022 21:12:25: 8000000 INFO @ Sat, 15 Jan 2022 21:12:26: 3000000 INFO @ Sat, 15 Jan 2022 21:12:28: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:12:28: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:12:28: #1 total tags in treatment: 4184413 INFO @ Sat, 15 Jan 2022 21:12:28: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:12:28: #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 21:12:28: #1 tags after filtering in treatment: 3579219 INFO @ Sat, 15 Jan 2022 21:12:28: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 15 Jan 2022 21:12:28: #1 finished! INFO @ Sat, 15 Jan 2022 21:12:28: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:12:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:12:28: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:12:28: Too few paired peaks (28) 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 21:12:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.10_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/SRX10468492/SRX10468492.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:12:31: 4000000 INFO @ Sat, 15 Jan 2022 21:12:37: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:12:43: 6000000 INFO @ Sat, 15 Jan 2022 21:12:48: 7000000 INFO @ Sat, 15 Jan 2022 21:12:54: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:12:57: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:12:57: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:12:57: #1 total tags in treatment: 4184413 INFO @ Sat, 15 Jan 2022 21:12:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:12:57: #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 21:12:57: #1 tags after filtering in treatment: 3579219 INFO @ Sat, 15 Jan 2022 21:12:57: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 15 Jan 2022 21:12:57: #1 finished! INFO @ Sat, 15 Jan 2022 21:12:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:12:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:12:57: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:12:57: Too few paired peaks (28) 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 21:12:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.20_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/SRX10468492/SRX10468492.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468492/SRX10468492.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling