Job ID = 14520874 SRX = SRX8245312 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14248264 spots for SRR11684539/SRR11684539.sra Written 14248264 spots for SRR11684539/SRR11684539.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: 00:11:27 14248264 reads; of these: 14248264 (100.00%) were paired; of these: 6279194 (44.07%) aligned concordantly 0 times 6908292 (48.49%) aligned concordantly exactly 1 time 1060778 (7.44%) aligned concordantly >1 times ---- 6279194 pairs aligned concordantly 0 times; of these: 51141 (0.81%) aligned discordantly 1 time ---- 6228053 pairs aligned 0 times concordantly or discordantly; of these: 12456106 mates make up the pairs; of these: 7073950 (56.79%) aligned 0 times 4624703 (37.13%) aligned exactly 1 time 757453 (6.08%) aligned >1 times 75.18% overall alignment rate Time searching: 00:11:27 Overall time: 00:11:27 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 12 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] 182827 / 8019243 = 0.0228 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 20:24:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.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 20:24:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:24:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:25:01: 1000000 INFO @ Sat, 15 Jan 2022 20:25:10: 2000000 INFO @ Sat, 15 Jan 2022 20:25:19: 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 20:25:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.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 20:25:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:25:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:25:28: 4000000 INFO @ Sat, 15 Jan 2022 20:25:32: 1000000 INFO @ Sat, 15 Jan 2022 20:25:37: 5000000 INFO @ Sat, 15 Jan 2022 20:25:41: 2000000 INFO @ Sat, 15 Jan 2022 20:25:47: 6000000 INFO @ Sat, 15 Jan 2022 20:25:50: 3000000 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 20:25:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.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 20:25:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:25:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:25:56: 7000000 INFO @ Sat, 15 Jan 2022 20:25:59: 4000000 INFO @ Sat, 15 Jan 2022 20:26:02: 1000000 INFO @ Sat, 15 Jan 2022 20:26:05: 8000000 INFO @ Sat, 15 Jan 2022 20:26:09: 5000000 INFO @ Sat, 15 Jan 2022 20:26:11: 2000000 INFO @ Sat, 15 Jan 2022 20:26:15: 9000000 INFO @ Sat, 15 Jan 2022 20:26:18: 6000000 INFO @ Sat, 15 Jan 2022 20:26:21: 3000000 INFO @ Sat, 15 Jan 2022 20:26:24: 10000000 INFO @ Sat, 15 Jan 2022 20:26:28: 7000000 INFO @ Sat, 15 Jan 2022 20:26:30: 4000000 INFO @ Sat, 15 Jan 2022 20:26:34: 11000000 INFO @ Sat, 15 Jan 2022 20:26:37: 8000000 INFO @ Sat, 15 Jan 2022 20:26:40: 5000000 INFO @ Sat, 15 Jan 2022 20:26:43: 12000000 INFO @ Sat, 15 Jan 2022 20:26:46: 9000000 INFO @ Sat, 15 Jan 2022 20:26:49: 6000000 INFO @ Sat, 15 Jan 2022 20:26:52: 13000000 INFO @ Sat, 15 Jan 2022 20:26:56: 10000000 INFO @ Sat, 15 Jan 2022 20:26:58: 7000000 INFO @ Sat, 15 Jan 2022 20:27:02: 14000000 INFO @ Sat, 15 Jan 2022 20:27:05: 11000000 INFO @ Sat, 15 Jan 2022 20:27:07: 8000000 INFO @ Sat, 15 Jan 2022 20:27:11: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:27:14: 12000000 INFO @ Sat, 15 Jan 2022 20:27:16: 9000000 INFO @ Sat, 15 Jan 2022 20:27:20: 16000000 INFO @ Sat, 15 Jan 2022 20:27:23: 13000000 INFO @ Sat, 15 Jan 2022 20:27:25: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:27:29: 17000000 INFO @ Sat, 15 Jan 2022 20:27:32: 14000000 INFO @ Sat, 15 Jan 2022 20:27:34: 11000000 INFO @ Sat, 15 Jan 2022 20:27:38: 18000000 INFO @ Sat, 15 Jan 2022 20:27:41: 15000000 INFO @ Sat, 15 Jan 2022 20:27:43: 12000000 INFO @ Sat, 15 Jan 2022 20:27:47: 19000000 INFO @ Sat, 15 Jan 2022 20:27:50: 16000000 INFO @ Sat, 15 Jan 2022 20:27:52: 13000000 INFO @ Sat, 15 Jan 2022 20:27:56: 20000000 INFO @ Sat, 15 Jan 2022 20:27:59: 17000000 INFO @ Sat, 15 Jan 2022 20:28:01: 14000000 INFO @ Sat, 15 Jan 2022 20:28:05: 21000000 INFO @ Sat, 15 Jan 2022 20:28:05: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:28:05: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:28:05: #1 total tags in treatment: 7786386 INFO @ Sat, 15 Jan 2022 20:28:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:28:05: #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 20:28:06: #1 tags after filtering in treatment: 5834421 INFO @ Sat, 15 Jan 2022 20:28:06: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 20:28:06: #1 finished! INFO @ Sat, 15 Jan 2022 20:28:06: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:28:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:28:06: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:28:06: 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 20:28:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 20:28:08: 18000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:28:10: 15000000 INFO @ Sat, 15 Jan 2022 20:28:17: 19000000 INFO @ Sat, 15 Jan 2022 20:28:19: 16000000 INFO @ Sat, 15 Jan 2022 20:28:26: 20000000 INFO @ Sat, 15 Jan 2022 20:28:28: 17000000 INFO @ Sat, 15 Jan 2022 20:28:34: 21000000 INFO @ Sat, 15 Jan 2022 20:28:35: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:28:35: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:28:35: #1 total tags in treatment: 7786386 INFO @ Sat, 15 Jan 2022 20:28:35: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:28:35: #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 20:28:35: #1 tags after filtering in treatment: 5834421 INFO @ Sat, 15 Jan 2022 20:28:35: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 20:28:35: #1 finished! INFO @ Sat, 15 Jan 2022 20:28:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:28:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:28:35: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:28:35: 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 20:28:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.10_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/SRX8245312/SRX8245312.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:28:37: 18000000 INFO @ Sat, 15 Jan 2022 20:28:45: 19000000 INFO @ Sat, 15 Jan 2022 20:28:54: 20000000 INFO @ Sat, 15 Jan 2022 20:29:02: 21000000 INFO @ Sat, 15 Jan 2022 20:29:03: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:29:03: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:29:03: #1 total tags in treatment: 7786386 INFO @ Sat, 15 Jan 2022 20:29:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:29:03: #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 20:29:03: #1 tags after filtering in treatment: 5834421 INFO @ Sat, 15 Jan 2022 20:29:03: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 20:29:03: #1 finished! INFO @ Sat, 15 Jan 2022 20:29:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:29:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:29:03: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:29:03: 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 20:29:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.20_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/SRX8245312/SRX8245312.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245312/SRX8245312.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling