Job ID = 5791188 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 16,976,555 reads read : 33,953,110 reads written : 33,953,110 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:14:44 16976555 reads; of these: 16976555 (100.00%) were paired; of these: 4031805 (23.75%) aligned concordantly 0 times 8396595 (49.46%) aligned concordantly exactly 1 time 4548155 (26.79%) aligned concordantly >1 times ---- 4031805 pairs aligned concordantly 0 times; of these: 1187319 (29.45%) aligned discordantly 1 time ---- 2844486 pairs aligned 0 times concordantly or discordantly; of these: 5688972 mates make up the pairs; of these: 4517118 (79.40%) aligned 0 times 203324 (3.57%) aligned exactly 1 time 968530 (17.02%) aligned >1 times 86.70% overall alignment rate Time searching: 00:14:44 Overall time: 00:14:44 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 16 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] 4605717 / 14001732 = 0.3289 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 @ Wed, 22 Apr 2020 09:27:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.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 @ Wed, 22 Apr 2020 09:27:34: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:27:34: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:27:43: 1000000 INFO @ Wed, 22 Apr 2020 09:27:52: 2000000 INFO @ Wed, 22 Apr 2020 09:27:58: 3000000 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 @ Wed, 22 Apr 2020 09:28:03: 4000000 INFO @ Wed, 22 Apr 2020 09:28:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.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 @ Wed, 22 Apr 2020 09:28:04: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:28:04: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:28:09: 5000000 INFO @ Wed, 22 Apr 2020 09:28:10: 1000000 INFO @ Wed, 22 Apr 2020 09:28:15: 6000000 INFO @ Wed, 22 Apr 2020 09:28:17: 2000000 INFO @ Wed, 22 Apr 2020 09:28:21: 7000000 INFO @ Wed, 22 Apr 2020 09:28:25: 3000000 INFO @ Wed, 22 Apr 2020 09:28:27: 8000000 BedGraph に変換中... INFO @ Wed, 22 Apr 2020 09:28:32: 4000000 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 @ Wed, 22 Apr 2020 09:28:33: 9000000 INFO @ Wed, 22 Apr 2020 09:28:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.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 @ Wed, 22 Apr 2020 09:28:34: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:28:34: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:28:39: 5000000 INFO @ Wed, 22 Apr 2020 09:28:40: 10000000 INFO @ Wed, 22 Apr 2020 09:28:40: 1000000 INFO @ Wed, 22 Apr 2020 09:28:46: 11000000 INFO @ Wed, 22 Apr 2020 09:28:46: 6000000 INFO @ Wed, 22 Apr 2020 09:28:47: 2000000 INFO @ Wed, 22 Apr 2020 09:28:52: 12000000 INFO @ Wed, 22 Apr 2020 09:28:54: 7000000 INFO @ Wed, 22 Apr 2020 09:28:55: 3000000 INFO @ Wed, 22 Apr 2020 09:28:57: 13000000 INFO @ Wed, 22 Apr 2020 09:29:01: 8000000 INFO @ Wed, 22 Apr 2020 09:29:02: 4000000 INFO @ Wed, 22 Apr 2020 09:29:04: 14000000 INFO @ Wed, 22 Apr 2020 09:29:08: 9000000 INFO @ Wed, 22 Apr 2020 09:29:09: 5000000 INFO @ Wed, 22 Apr 2020 09:29:11: 15000000 INFO @ Wed, 22 Apr 2020 09:29:15: 10000000 INFO @ Wed, 22 Apr 2020 09:29:16: 6000000 INFO @ Wed, 22 Apr 2020 09:29:17: 16000000 INFO @ Wed, 22 Apr 2020 09:29:23: 11000000 INFO @ Wed, 22 Apr 2020 09:29:23: 7000000 INFO @ Wed, 22 Apr 2020 09:29:24: 17000000 INFO @ Wed, 22 Apr 2020 09:29:30: 12000000 INFO @ Wed, 22 Apr 2020 09:29:30: 18000000 INFO @ Wed, 22 Apr 2020 09:29:30: 8000000 INFO @ Wed, 22 Apr 2020 09:29:36: 19000000 INFO @ Wed, 22 Apr 2020 09:29:36: 13000000 INFO @ Wed, 22 Apr 2020 09:29:37: 9000000 INFO @ Wed, 22 Apr 2020 09:29:41: 20000000 INFO @ Wed, 22 Apr 2020 09:29:43: 14000000 INFO @ Wed, 22 Apr 2020 09:29:43: #1 tag size is determined as 101 bps INFO @ Wed, 22 Apr 2020 09:29:43: #1 tag size = 101 INFO @ Wed, 22 Apr 2020 09:29:43: #1 total tags in treatment: 8506457 INFO @ Wed, 22 Apr 2020 09:29:43: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:29:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 09:29:43: #1 tags after filtering in treatment: 4461834 INFO @ Wed, 22 Apr 2020 09:29:43: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 22 Apr 2020 09:29:43: #1 finished! INFO @ Wed, 22 Apr 2020 09:29:43: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:29:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:29:43: #2 number of paired peaks: 14 WARNING @ Wed, 22 Apr 2020 09:29:43: Too few paired peaks (14) 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 @ Wed, 22 Apr 2020 09:29:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.05_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/SRX6614979/SRX6614979.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:29:44: 10000000 INFO @ Wed, 22 Apr 2020 09:29:49: 15000000 INFO @ Wed, 22 Apr 2020 09:29:51: 11000000 INFO @ Wed, 22 Apr 2020 09:29:55: 16000000 INFO @ Wed, 22 Apr 2020 09:29:58: 12000000 INFO @ Wed, 22 Apr 2020 09:30:01: 17000000 INFO @ Wed, 22 Apr 2020 09:30:04: 13000000 INFO @ Wed, 22 Apr 2020 09:30:08: 18000000 INFO @ Wed, 22 Apr 2020 09:30:10: 14000000 INFO @ Wed, 22 Apr 2020 09:30:15: 19000000 INFO @ Wed, 22 Apr 2020 09:30:17: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 09:30:22: 20000000 INFO @ Wed, 22 Apr 2020 09:30:23: 16000000 INFO @ Wed, 22 Apr 2020 09:30:23: #1 tag size is determined as 101 bps INFO @ Wed, 22 Apr 2020 09:30:23: #1 tag size = 101 INFO @ Wed, 22 Apr 2020 09:30:23: #1 total tags in treatment: 8506457 INFO @ Wed, 22 Apr 2020 09:30:23: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:30:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 09:30:23: #1 tags after filtering in treatment: 4461834 INFO @ Wed, 22 Apr 2020 09:30:23: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 22 Apr 2020 09:30:23: #1 finished! INFO @ Wed, 22 Apr 2020 09:30:23: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:30:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:30:24: #2 number of paired peaks: 14 WARNING @ Wed, 22 Apr 2020 09:30:24: Too few paired peaks (14) 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 @ Wed, 22 Apr 2020 09:30:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.10_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/SRX6614979/SRX6614979.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:30:29: 17000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 09:30:35: 18000000 INFO @ Wed, 22 Apr 2020 09:30:42: 19000000 INFO @ Wed, 22 Apr 2020 09:30:48: 20000000 INFO @ Wed, 22 Apr 2020 09:30:50: #1 tag size is determined as 101 bps INFO @ Wed, 22 Apr 2020 09:30:50: #1 tag size = 101 INFO @ Wed, 22 Apr 2020 09:30:50: #1 total tags in treatment: 8506457 INFO @ Wed, 22 Apr 2020 09:30:50: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:30:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 09:30:50: #1 tags after filtering in treatment: 4461834 INFO @ Wed, 22 Apr 2020 09:30:50: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 22 Apr 2020 09:30:50: #1 finished! INFO @ Wed, 22 Apr 2020 09:30:50: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:30:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:30:50: #2 number of paired peaks: 14 WARNING @ Wed, 22 Apr 2020 09:30:50: Too few paired peaks (14) 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 @ Wed, 22 Apr 2020 09:30:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.20_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/SRX6614979/SRX6614979.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614979/SRX6614979.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling