Job ID = 10223915 SRX = SRX4623305 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16032753 spots for SRR7767710/SRR7767710.sra Written 16032753 spots for SRR7767710/SRR7767710.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: 00:05:39 16032753 reads; of these: 16032753 (100.00%) were paired; of these: 928237 (5.79%) aligned concordantly 0 times 13055220 (81.43%) aligned concordantly exactly 1 time 2049296 (12.78%) aligned concordantly >1 times ---- 928237 pairs aligned concordantly 0 times; of these: 454906 (49.01%) aligned discordantly 1 time ---- 473331 pairs aligned 0 times concordantly or discordantly; of these: 946662 mates make up the pairs; of these: 537238 (56.75%) aligned 0 times 214943 (22.71%) aligned exactly 1 time 194481 (20.54%) aligned >1 times 98.32% overall alignment rate Time searching: 00:05:39 Overall time: 00:05:39 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] 401058 / 15415070 = 0.0260 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 08:56:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.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 @ Fri, 16 Oct 2020 08:56:33: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:56:33: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:56:38: 1000000 INFO @ Fri, 16 Oct 2020 08:56:42: 2000000 INFO @ Fri, 16 Oct 2020 08:56:47: 3000000 INFO @ Fri, 16 Oct 2020 08:56:51: 4000000 INFO @ Fri, 16 Oct 2020 08:56:56: 5000000 INFO @ Fri, 16 Oct 2020 08:57:00: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 08:57:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.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 @ Fri, 16 Oct 2020 08:57:03: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:57:03: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:57:05: 7000000 INFO @ Fri, 16 Oct 2020 08:57:08: 1000000 INFO @ Fri, 16 Oct 2020 08:57:10: 8000000 INFO @ Fri, 16 Oct 2020 08:57:13: 2000000 INFO @ Fri, 16 Oct 2020 08:57:15: 9000000 INFO @ Fri, 16 Oct 2020 08:57:18: 3000000 INFO @ Fri, 16 Oct 2020 08:57:20: 10000000 INFO @ Fri, 16 Oct 2020 08:57:23: 4000000 INFO @ Fri, 16 Oct 2020 08:57:24: 11000000 INFO @ Fri, 16 Oct 2020 08:57:27: 5000000 INFO @ Fri, 16 Oct 2020 08:57:29: 12000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 08:57:32: 6000000 INFO @ Fri, 16 Oct 2020 08:57:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.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 @ Fri, 16 Oct 2020 08:57:33: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:57:33: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:57:34: 13000000 INFO @ Fri, 16 Oct 2020 08:57:37: 7000000 INFO @ Fri, 16 Oct 2020 08:57:39: 1000000 INFO @ Fri, 16 Oct 2020 08:57:39: 14000000 INFO @ Fri, 16 Oct 2020 08:57:42: 8000000 INFO @ Fri, 16 Oct 2020 08:57:44: 15000000 INFO @ Fri, 16 Oct 2020 08:57:44: 2000000 INFO @ Fri, 16 Oct 2020 08:57:47: 9000000 INFO @ Fri, 16 Oct 2020 08:57:49: 16000000 INFO @ Fri, 16 Oct 2020 08:57:49: 3000000 INFO @ Fri, 16 Oct 2020 08:57:52: 10000000 INFO @ Fri, 16 Oct 2020 08:57:54: 17000000 INFO @ Fri, 16 Oct 2020 08:57:55: 4000000 INFO @ Fri, 16 Oct 2020 08:57:57: 11000000 INFO @ Fri, 16 Oct 2020 08:57:58: 18000000 INFO @ Fri, 16 Oct 2020 08:58:00: 5000000 INFO @ Fri, 16 Oct 2020 08:58:02: 12000000 INFO @ Fri, 16 Oct 2020 08:58:03: 19000000 INFO @ Fri, 16 Oct 2020 08:58:06: 6000000 INFO @ Fri, 16 Oct 2020 08:58:06: 13000000 INFO @ Fri, 16 Oct 2020 08:58:08: 20000000 INFO @ Fri, 16 Oct 2020 08:58:11: 14000000 INFO @ Fri, 16 Oct 2020 08:58:11: 7000000 INFO @ Fri, 16 Oct 2020 08:58:13: 21000000 INFO @ Fri, 16 Oct 2020 08:58:16: 15000000 INFO @ Fri, 16 Oct 2020 08:58:17: 8000000 INFO @ Fri, 16 Oct 2020 08:58:18: 22000000 INFO @ Fri, 16 Oct 2020 08:58:21: 16000000 INFO @ Fri, 16 Oct 2020 08:58:22: 9000000 INFO @ Fri, 16 Oct 2020 08:58:23: 23000000 INFO @ Fri, 16 Oct 2020 08:58:26: 17000000 INFO @ Fri, 16 Oct 2020 08:58:28: 24000000 INFO @ Fri, 16 Oct 2020 08:58:28: 10000000 INFO @ Fri, 16 Oct 2020 08:58:31: 18000000 INFO @ Fri, 16 Oct 2020 08:58:33: 25000000 INFO @ Fri, 16 Oct 2020 08:58:33: 11000000 INFO @ Fri, 16 Oct 2020 08:58:36: 19000000 INFO @ Fri, 16 Oct 2020 08:58:38: 26000000 INFO @ Fri, 16 Oct 2020 08:58:39: 12000000 INFO @ Fri, 16 Oct 2020 08:58:40: 20000000 INFO @ Fri, 16 Oct 2020 08:58:42: 27000000 INFO @ Fri, 16 Oct 2020 08:58:44: 13000000 INFO @ Fri, 16 Oct 2020 08:58:45: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 08:58:47: 28000000 INFO @ Fri, 16 Oct 2020 08:58:50: 14000000 INFO @ Fri, 16 Oct 2020 08:58:50: 22000000 INFO @ Fri, 16 Oct 2020 08:58:52: 29000000 INFO @ Fri, 16 Oct 2020 08:58:55: 23000000 INFO @ Fri, 16 Oct 2020 08:58:55: 15000000 INFO @ Fri, 16 Oct 2020 08:58:57: 30000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 08:59:00: 24000000 INFO @ Fri, 16 Oct 2020 08:59:01: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:59:01: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:59:01: #1 total tags in treatment: 14704730 INFO @ Fri, 16 Oct 2020 08:59:01: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:59:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:59:01: #1 tags after filtering in treatment: 9539226 INFO @ Fri, 16 Oct 2020 08:59:01: #1 Redundant rate of treatment: 0.35 INFO @ Fri, 16 Oct 2020 08:59:01: #1 finished! INFO @ Fri, 16 Oct 2020 08:59:01: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:59:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:59:01: 16000000 INFO @ Fri, 16 Oct 2020 08:59:02: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:59:02: 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 @ Fri, 16 Oct 2020 08:59:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.05_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/SRX4623305/SRX4623305.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 08:59:05: 25000000 INFO @ Fri, 16 Oct 2020 08:59:06: 17000000 INFO @ Fri, 16 Oct 2020 08:59:10: 26000000 INFO @ Fri, 16 Oct 2020 08:59:12: 18000000 INFO @ Fri, 16 Oct 2020 08:59:14: 27000000 INFO @ Fri, 16 Oct 2020 08:59:17: 19000000 INFO @ Fri, 16 Oct 2020 08:59:19: 28000000 INFO @ Fri, 16 Oct 2020 08:59:23: 20000000 INFO @ Fri, 16 Oct 2020 08:59:24: 29000000 INFO @ Fri, 16 Oct 2020 08:59:28: 21000000 INFO @ Fri, 16 Oct 2020 08:59:29: 30000000 INFO @ Fri, 16 Oct 2020 08:59:32: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:59:32: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:59:32: #1 total tags in treatment: 14704730 INFO @ Fri, 16 Oct 2020 08:59:32: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:59:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:59:32: #1 tags after filtering in treatment: 9539226 INFO @ Fri, 16 Oct 2020 08:59:32: #1 Redundant rate of treatment: 0.35 INFO @ Fri, 16 Oct 2020 08:59:32: #1 finished! INFO @ Fri, 16 Oct 2020 08:59:32: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:59:32: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:59:33: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:59:33: 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 @ Fri, 16 Oct 2020 08:59:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.10_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/SRX4623305/SRX4623305.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 08:59:34: 22000000 INFO @ Fri, 16 Oct 2020 08:59:39: 23000000 INFO @ Fri, 16 Oct 2020 08:59:44: 24000000 INFO @ Fri, 16 Oct 2020 08:59:49: 25000000 INFO @ Fri, 16 Oct 2020 08:59:55: 26000000 INFO @ Fri, 16 Oct 2020 09:00:00: 27000000 INFO @ Fri, 16 Oct 2020 09:00:05: 28000000 INFO @ Fri, 16 Oct 2020 09:00:10: 29000000 INFO @ Fri, 16 Oct 2020 09:00:15: 30000000 INFO @ Fri, 16 Oct 2020 09:00:19: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 09:00:19: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 09:00:19: #1 total tags in treatment: 14704730 INFO @ Fri, 16 Oct 2020 09:00:19: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:00:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:00:19: #1 tags after filtering in treatment: 9539226 INFO @ Fri, 16 Oct 2020 09:00:19: #1 Redundant rate of treatment: 0.35 INFO @ Fri, 16 Oct 2020 09:00:19: #1 finished! INFO @ Fri, 16 Oct 2020 09:00:19: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:00:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:00:20: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:00:20: 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 @ Fri, 16 Oct 2020 09:00:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623305/SRX4623305.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling