Job ID = 12531676 SRX = SRX4555048 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17085874 spots for SRR7696746/SRR7696746.sra Written 17085874 spots for SRR7696746/SRR7696746.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: 00:20:44 17085874 reads; of these: 17085874 (100.00%) were paired; of these: 1111753 (6.51%) aligned concordantly 0 times 8802627 (51.52%) aligned concordantly exactly 1 time 7171494 (41.97%) aligned concordantly >1 times ---- 1111753 pairs aligned concordantly 0 times; of these: 62628 (5.63%) aligned discordantly 1 time ---- 1049125 pairs aligned 0 times concordantly or discordantly; of these: 2098250 mates make up the pairs; of these: 1717058 (81.83%) aligned 0 times 211926 (10.10%) aligned exactly 1 time 169266 (8.07%) aligned >1 times 94.98% overall alignment rate Time searching: 00:20:44 Overall time: 00:20:44 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 24 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] 2816159 / 7213710 = 0.3904 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:37:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.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, 17 Apr 2021 09:37:17: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:37:17: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:37:25: 1000000 INFO @ Sat, 17 Apr 2021 09:37:32: 2000000 INFO @ Sat, 17 Apr 2021 09:37:39: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:37:46: 4000000 INFO @ Sat, 17 Apr 2021 09:37:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.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, 17 Apr 2021 09:37:48: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:37:48: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:37:54: 5000000 INFO @ Sat, 17 Apr 2021 09:38:02: 6000000 INFO @ Sat, 17 Apr 2021 09:38:07: 1000000 INFO @ Sat, 17 Apr 2021 09:38:10: 7000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:38:18: 8000000 INFO @ Sat, 17 Apr 2021 09:38:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.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, 17 Apr 2021 09:38:18: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:38:18: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:38:26: 2000000 INFO @ Sat, 17 Apr 2021 09:38:26: 9000000 INFO @ Sat, 17 Apr 2021 09:38:31: 1000000 INFO @ Sat, 17 Apr 2021 09:38:34: 10000000 INFO @ Sat, 17 Apr 2021 09:38:42: 11000000 INFO @ Sat, 17 Apr 2021 09:38:44: 3000000 INFO @ Sat, 17 Apr 2021 09:38:47: 2000000 INFO @ Sat, 17 Apr 2021 09:38:50: 12000000 INFO @ Sat, 17 Apr 2021 09:38:58: 13000000 INFO @ Sat, 17 Apr 2021 09:39:01: 4000000 INFO @ Sat, 17 Apr 2021 09:39:02: 3000000 INFO @ Sat, 17 Apr 2021 09:39:06: 14000000 INFO @ Sat, 17 Apr 2021 09:39:13: 15000000 INFO @ Sat, 17 Apr 2021 09:39:13: 4000000 INFO @ Sat, 17 Apr 2021 09:39:19: 5000000 INFO @ Sat, 17 Apr 2021 09:39:21: 16000000 INFO @ Sat, 17 Apr 2021 09:39:29: 17000000 INFO @ Sat, 17 Apr 2021 09:39:29: 5000000 INFO @ Sat, 17 Apr 2021 09:39:35: 6000000 INFO @ Sat, 17 Apr 2021 09:39:36: 18000000 INFO @ Sat, 17 Apr 2021 09:39:42: 6000000 INFO @ Sat, 17 Apr 2021 09:39:44: 19000000 INFO @ Sat, 17 Apr 2021 09:39:51: 20000000 INFO @ Sat, 17 Apr 2021 09:39:52: 7000000 INFO @ Sat, 17 Apr 2021 09:39:57: 7000000 INFO @ Sat, 17 Apr 2021 09:39:59: 21000000 INFO @ Sat, 17 Apr 2021 09:40:07: 22000000 INFO @ Sat, 17 Apr 2021 09:40:09: 8000000 INFO @ Sat, 17 Apr 2021 09:40:15: 8000000 INFO @ Sat, 17 Apr 2021 09:40:15: 23000000 INFO @ Sat, 17 Apr 2021 09:40:23: 24000000 INFO @ Sat, 17 Apr 2021 09:40:28: 9000000 INFO @ Sat, 17 Apr 2021 09:40:31: 25000000 INFO @ Sat, 17 Apr 2021 09:40:32: 9000000 INFO @ Sat, 17 Apr 2021 09:40:39: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:40:46: #1 tag size is determined as 81 bps INFO @ Sat, 17 Apr 2021 09:40:46: #1 tag size = 81 INFO @ Sat, 17 Apr 2021 09:40:46: #1 total tags in treatment: 13161968 INFO @ Sat, 17 Apr 2021 09:40:46: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:40:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:40:46: 10000000 INFO @ Sat, 17 Apr 2021 09:40:46: #1 tags after filtering in treatment: 3251044 INFO @ Sat, 17 Apr 2021 09:40:46: #1 Redundant rate of treatment: 0.75 INFO @ Sat, 17 Apr 2021 09:40:46: #1 finished! INFO @ Sat, 17 Apr 2021 09:40:46: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:40:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:40:46: #2 number of paired peaks: 33 WARNING @ Sat, 17 Apr 2021 09:40:46: Too few paired peaks (33) 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, 17 Apr 2021 09:40:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:40:48: 10000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:41:03: 11000000 INFO @ Sat, 17 Apr 2021 09:41:04: 11000000 INFO @ Sat, 17 Apr 2021 09:41:18: 12000000 INFO @ Sat, 17 Apr 2021 09:41:20: 12000000 INFO @ Sat, 17 Apr 2021 09:41:29: 13000000 INFO @ Sat, 17 Apr 2021 09:41:36: 13000000 INFO @ Sat, 17 Apr 2021 09:41:41: 14000000 INFO @ Sat, 17 Apr 2021 09:41:51: 14000000 INFO @ Sat, 17 Apr 2021 09:41:53: 15000000 INFO @ Sat, 17 Apr 2021 09:42:06: 15000000 INFO @ Sat, 17 Apr 2021 09:42:07: 16000000 INFO @ Sat, 17 Apr 2021 09:42:19: 17000000 INFO @ Sat, 17 Apr 2021 09:42:20: 16000000 INFO @ Sat, 17 Apr 2021 09:42:30: 18000000 INFO @ Sat, 17 Apr 2021 09:42:34: 17000000 INFO @ Sat, 17 Apr 2021 09:42:42: 19000000 INFO @ Sat, 17 Apr 2021 09:42:49: 18000000 INFO @ Sat, 17 Apr 2021 09:42:54: 20000000 INFO @ Sat, 17 Apr 2021 09:43:03: 19000000 INFO @ Sat, 17 Apr 2021 09:43:04: 21000000 INFO @ Sat, 17 Apr 2021 09:43:15: 22000000 INFO @ Sat, 17 Apr 2021 09:43:18: 20000000 INFO @ Sat, 17 Apr 2021 09:43:26: 23000000 INFO @ Sat, 17 Apr 2021 09:43:32: 21000000 INFO @ Sat, 17 Apr 2021 09:43:37: 24000000 INFO @ Sat, 17 Apr 2021 09:43:47: 22000000 INFO @ Sat, 17 Apr 2021 09:43:49: 25000000 INFO @ Sat, 17 Apr 2021 09:43:59: 26000000 INFO @ Sat, 17 Apr 2021 09:44:01: 23000000 INFO @ Sat, 17 Apr 2021 09:44:09: #1 tag size is determined as 81 bps INFO @ Sat, 17 Apr 2021 09:44:09: #1 tag size = 81 INFO @ Sat, 17 Apr 2021 09:44:09: #1 total tags in treatment: 13161968 INFO @ Sat, 17 Apr 2021 09:44:09: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:44:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:44:09: #1 tags after filtering in treatment: 3251044 INFO @ Sat, 17 Apr 2021 09:44:09: #1 Redundant rate of treatment: 0.75 INFO @ Sat, 17 Apr 2021 09:44:09: #1 finished! INFO @ Sat, 17 Apr 2021 09:44:09: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:44:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:44:10: #2 number of paired peaks: 33 WARNING @ Sat, 17 Apr 2021 09:44:10: Too few paired peaks (33) 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, 17 Apr 2021 09:44:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:44:15: 24000000 INFO @ Sat, 17 Apr 2021 09:44:30: 25000000 INFO @ Sat, 17 Apr 2021 09:44:44: 26000000 INFO @ Sat, 17 Apr 2021 09:44:57: #1 tag size is determined as 81 bps INFO @ Sat, 17 Apr 2021 09:44:57: #1 tag size = 81 INFO @ Sat, 17 Apr 2021 09:44:57: #1 total tags in treatment: 13161968 INFO @ Sat, 17 Apr 2021 09:44:57: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:44:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:44:57: #1 tags after filtering in treatment: 3251044 INFO @ Sat, 17 Apr 2021 09:44:57: #1 Redundant rate of treatment: 0.75 INFO @ Sat, 17 Apr 2021 09:44:57: #1 finished! INFO @ Sat, 17 Apr 2021 09:44:57: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:44:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:44:57: #2 number of paired peaks: 33 WARNING @ Sat, 17 Apr 2021 09:44:57: Too few paired peaks (33) 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, 17 Apr 2021 09:44:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.10_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/SRX4555048/SRX4555048.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555048/SRX4555048.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling