Job ID = 14520006 SRX = SRX8829454 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 37969270 spots for SRR12329248/SRR12329248.sra Written 37969270 spots for SRR12329248/SRR12329248.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: 00:30:12 37969270 reads; of these: 37969270 (100.00%) were paired; of these: 2345979 (6.18%) aligned concordantly 0 times 30466990 (80.24%) aligned concordantly exactly 1 time 5156301 (13.58%) aligned concordantly >1 times ---- 2345979 pairs aligned concordantly 0 times; of these: 197166 (8.40%) aligned discordantly 1 time ---- 2148813 pairs aligned 0 times concordantly or discordantly; of these: 4297626 mates make up the pairs; of these: 3845923 (89.49%) aligned 0 times 284751 (6.63%) aligned exactly 1 time 166952 (3.88%) aligned >1 times 94.94% overall alignment rate Time searching: 00:30:12 Overall time: 00:30:12 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 32 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] 11449263 / 35804224 = 0.3198 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 19:06:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.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 19:06:35: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:06:35: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:06:41: 1000000 INFO @ Sat, 15 Jan 2022 19:06:48: 2000000 INFO @ Sat, 15 Jan 2022 19:06:54: 3000000 INFO @ Sat, 15 Jan 2022 19:07:00: 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 19:07:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.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 19:07:05: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:07:05: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:07:07: 5000000 INFO @ Sat, 15 Jan 2022 19:07:12: 1000000 INFO @ Sat, 15 Jan 2022 19:07:14: 6000000 INFO @ Sat, 15 Jan 2022 19:07:19: 2000000 INFO @ Sat, 15 Jan 2022 19:07:20: 7000000 INFO @ Sat, 15 Jan 2022 19:07:26: 3000000 INFO @ Sat, 15 Jan 2022 19:07:27: 8000000 INFO @ Sat, 15 Jan 2022 19:07:32: 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 19:07:33: 9000000 INFO @ Sat, 15 Jan 2022 19:07:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.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 19:07:35: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:07:35: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:07:39: 5000000 INFO @ Sat, 15 Jan 2022 19:07:40: 10000000 INFO @ Sat, 15 Jan 2022 19:07:41: 1000000 INFO @ Sat, 15 Jan 2022 19:07:46: 11000000 INFO @ Sat, 15 Jan 2022 19:07:46: 6000000 INFO @ Sat, 15 Jan 2022 19:07:47: 2000000 INFO @ Sat, 15 Jan 2022 19:07:53: 7000000 INFO @ Sat, 15 Jan 2022 19:07:53: 12000000 INFO @ Sat, 15 Jan 2022 19:07:53: 3000000 INFO @ Sat, 15 Jan 2022 19:07:59: 4000000 INFO @ Sat, 15 Jan 2022 19:08:00: 13000000 INFO @ Sat, 15 Jan 2022 19:08:00: 8000000 INFO @ Sat, 15 Jan 2022 19:08:05: 5000000 INFO @ Sat, 15 Jan 2022 19:08:07: 14000000 INFO @ Sat, 15 Jan 2022 19:08:07: 9000000 INFO @ Sat, 15 Jan 2022 19:08:11: 6000000 INFO @ Sat, 15 Jan 2022 19:08:13: 10000000 INFO @ Sat, 15 Jan 2022 19:08:13: 15000000 INFO @ Sat, 15 Jan 2022 19:08:17: 7000000 INFO @ Sat, 15 Jan 2022 19:08:20: 11000000 INFO @ Sat, 15 Jan 2022 19:08:20: 16000000 INFO @ Sat, 15 Jan 2022 19:08:23: 8000000 INFO @ Sat, 15 Jan 2022 19:08:27: 12000000 INFO @ Sat, 15 Jan 2022 19:08:27: 17000000 INFO @ Sat, 15 Jan 2022 19:08:29: 9000000 INFO @ Sat, 15 Jan 2022 19:08:34: 18000000 INFO @ Sat, 15 Jan 2022 19:08:34: 13000000 INFO @ Sat, 15 Jan 2022 19:08:35: 10000000 INFO @ Sat, 15 Jan 2022 19:08:40: 14000000 INFO @ Sat, 15 Jan 2022 19:08:40: 19000000 INFO @ Sat, 15 Jan 2022 19:08:40: 11000000 INFO @ Sat, 15 Jan 2022 19:08:46: 12000000 INFO @ Sat, 15 Jan 2022 19:08:47: 15000000 INFO @ Sat, 15 Jan 2022 19:08:47: 20000000 INFO @ Sat, 15 Jan 2022 19:08:52: 13000000 INFO @ Sat, 15 Jan 2022 19:08:53: 16000000 INFO @ Sat, 15 Jan 2022 19:08:54: 21000000 INFO @ Sat, 15 Jan 2022 19:08:58: 14000000 INFO @ Sat, 15 Jan 2022 19:09:00: 17000000 INFO @ Sat, 15 Jan 2022 19:09:00: 22000000 INFO @ Sat, 15 Jan 2022 19:09:04: 15000000 INFO @ Sat, 15 Jan 2022 19:09:07: 18000000 INFO @ Sat, 15 Jan 2022 19:09:07: 23000000 INFO @ Sat, 15 Jan 2022 19:09:10: 16000000 INFO @ Sat, 15 Jan 2022 19:09:13: 19000000 INFO @ Sat, 15 Jan 2022 19:09:14: 24000000 INFO @ Sat, 15 Jan 2022 19:09:16: 17000000 INFO @ Sat, 15 Jan 2022 19:09:20: 20000000 INFO @ Sat, 15 Jan 2022 19:09:21: 25000000 INFO @ Sat, 15 Jan 2022 19:09:22: 18000000 INFO @ Sat, 15 Jan 2022 19:09:27: 21000000 INFO @ Sat, 15 Jan 2022 19:09:28: 19000000 INFO @ Sat, 15 Jan 2022 19:09:28: 26000000 INFO @ Sat, 15 Jan 2022 19:09:33: 22000000 INFO @ Sat, 15 Jan 2022 19:09:34: 20000000 INFO @ Sat, 15 Jan 2022 19:09:35: 27000000 INFO @ Sat, 15 Jan 2022 19:09:40: 21000000 INFO @ Sat, 15 Jan 2022 19:09:40: 23000000 INFO @ Sat, 15 Jan 2022 19:09:42: 28000000 INFO @ Sat, 15 Jan 2022 19:09:46: 22000000 INFO @ Sat, 15 Jan 2022 19:09:47: 24000000 INFO @ Sat, 15 Jan 2022 19:09:49: 29000000 INFO @ Sat, 15 Jan 2022 19:09:52: 23000000 INFO @ Sat, 15 Jan 2022 19:09:54: 25000000 INFO @ Sat, 15 Jan 2022 19:09:55: 30000000 INFO @ Sat, 15 Jan 2022 19:09:58: 24000000 INFO @ Sat, 15 Jan 2022 19:10:00: 26000000 INFO @ Sat, 15 Jan 2022 19:10:02: 31000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:10:04: 25000000 INFO @ Sat, 15 Jan 2022 19:10:07: 27000000 INFO @ Sat, 15 Jan 2022 19:10:09: 32000000 INFO @ Sat, 15 Jan 2022 19:10:10: 26000000 INFO @ Sat, 15 Jan 2022 19:10:14: 28000000 INFO @ Sat, 15 Jan 2022 19:10:16: 33000000 INFO @ Sat, 15 Jan 2022 19:10:16: 27000000 INFO @ Sat, 15 Jan 2022 19:10:21: 29000000 INFO @ Sat, 15 Jan 2022 19:10:21: 28000000 INFO @ Sat, 15 Jan 2022 19:10:22: 34000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:10:27: 29000000 INFO @ Sat, 15 Jan 2022 19:10:27: 30000000 INFO @ Sat, 15 Jan 2022 19:10:29: 35000000 INFO @ Sat, 15 Jan 2022 19:10:33: 30000000 INFO @ Sat, 15 Jan 2022 19:10:34: 31000000 INFO @ Sat, 15 Jan 2022 19:10:36: 36000000 INFO @ Sat, 15 Jan 2022 19:10:39: 31000000 INFO @ Sat, 15 Jan 2022 19:10:41: 32000000 INFO @ Sat, 15 Jan 2022 19:10:43: 37000000 INFO @ Sat, 15 Jan 2022 19:10:45: 32000000 INFO @ Sat, 15 Jan 2022 19:10:48: 33000000 INFO @ Sat, 15 Jan 2022 19:10:50: 38000000 INFO @ Sat, 15 Jan 2022 19:10:51: 33000000 INFO @ Sat, 15 Jan 2022 19:10:54: 34000000 INFO @ Sat, 15 Jan 2022 19:10:56: 39000000 INFO @ Sat, 15 Jan 2022 19:10:56: 34000000 INFO @ Sat, 15 Jan 2022 19:11:01: 35000000 INFO @ Sat, 15 Jan 2022 19:11:02: 35000000 INFO @ Sat, 15 Jan 2022 19:11:03: 40000000 INFO @ Sat, 15 Jan 2022 19:11:08: 36000000 INFO @ Sat, 15 Jan 2022 19:11:08: 36000000 INFO @ Sat, 15 Jan 2022 19:11:10: 41000000 INFO @ Sat, 15 Jan 2022 19:11:14: 37000000 INFO @ Sat, 15 Jan 2022 19:11:15: 37000000 INFO @ Sat, 15 Jan 2022 19:11:17: 42000000 INFO @ Sat, 15 Jan 2022 19:11:20: 38000000 INFO @ Sat, 15 Jan 2022 19:11:21: 38000000 INFO @ Sat, 15 Jan 2022 19:11:23: 43000000 INFO @ Sat, 15 Jan 2022 19:11:26: 39000000 INFO @ Sat, 15 Jan 2022 19:11:28: 39000000 INFO @ Sat, 15 Jan 2022 19:11:30: 44000000 INFO @ Sat, 15 Jan 2022 19:11:32: 40000000 INFO @ Sat, 15 Jan 2022 19:11:35: 40000000 INFO @ Sat, 15 Jan 2022 19:11:37: 45000000 INFO @ Sat, 15 Jan 2022 19:11:38: 41000000 INFO @ Sat, 15 Jan 2022 19:11:42: 41000000 INFO @ Sat, 15 Jan 2022 19:11:44: 46000000 INFO @ Sat, 15 Jan 2022 19:11:44: 42000000 INFO @ Sat, 15 Jan 2022 19:11:48: 42000000 INFO @ Sat, 15 Jan 2022 19:11:50: 43000000 INFO @ Sat, 15 Jan 2022 19:11:50: 47000000 INFO @ Sat, 15 Jan 2022 19:11:55: 43000000 INFO @ Sat, 15 Jan 2022 19:11:56: 44000000 INFO @ Sat, 15 Jan 2022 19:11:57: 48000000 INFO @ Sat, 15 Jan 2022 19:12:01: 45000000 INFO @ Sat, 15 Jan 2022 19:12:02: 44000000 INFO @ Sat, 15 Jan 2022 19:12:04: 49000000 INFO @ Sat, 15 Jan 2022 19:12:06: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 19:12:06: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 19:12:06: #1 total tags in treatment: 24185642 INFO @ Sat, 15 Jan 2022 19:12:06: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:12:06: #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 19:12:07: #1 tags after filtering in treatment: 8207908 INFO @ Sat, 15 Jan 2022 19:12:07: #1 Redundant rate of treatment: 0.66 INFO @ Sat, 15 Jan 2022 19:12:07: #1 finished! INFO @ Sat, 15 Jan 2022 19:12:07: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:12:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:12:07: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:12:07: 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 19:12:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 19:12:07: 46000000 pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:12:09: 45000000 INFO @ Sat, 15 Jan 2022 19:12:13: 47000000 INFO @ Sat, 15 Jan 2022 19:12:15: 46000000 INFO @ Sat, 15 Jan 2022 19:12:19: 48000000 INFO @ Sat, 15 Jan 2022 19:12:21: 47000000 INFO @ Sat, 15 Jan 2022 19:12:25: 49000000 INFO @ Sat, 15 Jan 2022 19:12:26: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 19:12:26: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 19:12:26: #1 total tags in treatment: 24185642 INFO @ Sat, 15 Jan 2022 19:12:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:12:26: #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 19:12:27: #1 tags after filtering in treatment: 8207908 INFO @ Sat, 15 Jan 2022 19:12:27: #1 Redundant rate of treatment: 0.66 INFO @ Sat, 15 Jan 2022 19:12:27: #1 finished! INFO @ Sat, 15 Jan 2022 19:12:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:12:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:12:27: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:12:27: 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 19:12:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.20_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 19:12:27: 48000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:12:34: 49000000 INFO @ Sat, 15 Jan 2022 19:12:35: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 19:12:35: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 19:12:35: #1 total tags in treatment: 24185642 INFO @ Sat, 15 Jan 2022 19:12:35: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:12:35: #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 19:12:36: #1 tags after filtering in treatment: 8207908 INFO @ Sat, 15 Jan 2022 19:12:36: #1 Redundant rate of treatment: 0.66 INFO @ Sat, 15 Jan 2022 19:12:36: #1 finished! INFO @ Sat, 15 Jan 2022 19:12:36: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:12:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:12:36: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:12:36: 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 19:12:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.10_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/SRX8829454/SRX8829454.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829454/SRX8829454.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling