Job ID = 7107280 SRX = SRX6911548 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16582218 spots for SRR10191175/SRR10191175.sra Written 16582218 spots for SRR10191175/SRR10191175.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: 00:18:15 16582218 reads; of these: 16582218 (100.00%) were paired; of these: 3151037 (19.00%) aligned concordantly 0 times 11378151 (68.62%) aligned concordantly exactly 1 time 2053030 (12.38%) aligned concordantly >1 times ---- 3151037 pairs aligned concordantly 0 times; of these: 1474282 (46.79%) aligned discordantly 1 time ---- 1676755 pairs aligned 0 times concordantly or discordantly; of these: 3353510 mates make up the pairs; of these: 1916070 (57.14%) aligned 0 times 840094 (25.05%) aligned exactly 1 time 597346 (17.81%) aligned >1 times 94.22% overall alignment rate Time searching: 00:18:15 Overall time: 00:18:15 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] 2299586 / 14903618 = 0.1543 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 Jul 2020 13:34:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.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 Jul 2020 13:34:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:34:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:34:09: 1000000 INFO @ Wed, 22 Jul 2020 13:34:15: 2000000 INFO @ Wed, 22 Jul 2020 13:34:22: 3000000 INFO @ Wed, 22 Jul 2020 13:34:29: 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 Jul 2020 13:34:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.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 Jul 2020 13:34:32: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:34:32: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:34:36: 5000000 INFO @ Wed, 22 Jul 2020 13:34:39: 1000000 INFO @ Wed, 22 Jul 2020 13:34:43: 6000000 INFO @ Wed, 22 Jul 2020 13:34:47: 2000000 INFO @ Wed, 22 Jul 2020 13:34:51: 7000000 INFO @ Wed, 22 Jul 2020 13:34:54: 3000000 INFO @ Wed, 22 Jul 2020 13:34:58: 8000000 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 @ Wed, 22 Jul 2020 13:35:01: 4000000 INFO @ Wed, 22 Jul 2020 13:35:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.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 Jul 2020 13:35:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:35:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:35:06: 9000000 INFO @ Wed, 22 Jul 2020 13:35:09: 5000000 INFO @ Wed, 22 Jul 2020 13:35:11: 1000000 INFO @ Wed, 22 Jul 2020 13:35:14: 10000000 INFO @ Wed, 22 Jul 2020 13:35:17: 6000000 INFO @ Wed, 22 Jul 2020 13:35:21: 2000000 INFO @ Wed, 22 Jul 2020 13:35:22: 11000000 INFO @ Wed, 22 Jul 2020 13:35:25: 7000000 INFO @ Wed, 22 Jul 2020 13:35:30: 3000000 INFO @ Wed, 22 Jul 2020 13:35:30: 12000000 INFO @ Wed, 22 Jul 2020 13:35:33: 8000000 INFO @ Wed, 22 Jul 2020 13:35:38: 13000000 INFO @ Wed, 22 Jul 2020 13:35:38: 4000000 INFO @ Wed, 22 Jul 2020 13:35:41: 9000000 INFO @ Wed, 22 Jul 2020 13:35:46: 14000000 INFO @ Wed, 22 Jul 2020 13:35:47: 5000000 INFO @ Wed, 22 Jul 2020 13:35:49: 10000000 INFO @ Wed, 22 Jul 2020 13:35:54: 15000000 INFO @ Wed, 22 Jul 2020 13:35:56: 6000000 INFO @ Wed, 22 Jul 2020 13:35:57: 11000000 INFO @ Wed, 22 Jul 2020 13:36:02: 16000000 INFO @ Wed, 22 Jul 2020 13:36:04: 7000000 INFO @ Wed, 22 Jul 2020 13:36:05: 12000000 INFO @ Wed, 22 Jul 2020 13:36:10: 17000000 INFO @ Wed, 22 Jul 2020 13:36:13: 13000000 INFO @ Wed, 22 Jul 2020 13:36:13: 8000000 INFO @ Wed, 22 Jul 2020 13:36:18: 18000000 INFO @ Wed, 22 Jul 2020 13:36:20: 14000000 INFO @ Wed, 22 Jul 2020 13:36:22: 9000000 INFO @ Wed, 22 Jul 2020 13:36:25: 19000000 INFO @ Wed, 22 Jul 2020 13:36:28: 15000000 INFO @ Wed, 22 Jul 2020 13:36:30: 10000000 INFO @ Wed, 22 Jul 2020 13:36:33: 20000000 INFO @ Wed, 22 Jul 2020 13:36:36: 16000000 INFO @ Wed, 22 Jul 2020 13:36:39: 11000000 INFO @ Wed, 22 Jul 2020 13:36:41: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:36:44: 17000000 INFO @ Wed, 22 Jul 2020 13:36:48: 12000000 INFO @ Wed, 22 Jul 2020 13:36:49: 22000000 INFO @ Wed, 22 Jul 2020 13:36:52: 18000000 INFO @ Wed, 22 Jul 2020 13:36:57: 13000000 INFO @ Wed, 22 Jul 2020 13:36:57: 23000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:37:01: 19000000 INFO @ Wed, 22 Jul 2020 13:37:05: 24000000 INFO @ Wed, 22 Jul 2020 13:37:05: 14000000 INFO @ Wed, 22 Jul 2020 13:37:09: 20000000 INFO @ Wed, 22 Jul 2020 13:37:12: 25000000 INFO @ Wed, 22 Jul 2020 13:37:14: 15000000 INFO @ Wed, 22 Jul 2020 13:37:17: 21000000 INFO @ Wed, 22 Jul 2020 13:37:20: 26000000 INFO @ Wed, 22 Jul 2020 13:37:23: 16000000 INFO @ Wed, 22 Jul 2020 13:37:24: 22000000 INFO @ Wed, 22 Jul 2020 13:37:25: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:37:25: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:37:25: #1 total tags in treatment: 11261080 INFO @ Wed, 22 Jul 2020 13:37:25: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:37:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:37:26: #1 tags after filtering in treatment: 7802236 INFO @ Wed, 22 Jul 2020 13:37:26: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 13:37:26: #1 finished! INFO @ Wed, 22 Jul 2020 13:37:26: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:37:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:37:26: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:37:26: 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 @ Wed, 22 Jul 2020 13:37:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.05_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/SRX6911548/SRX6911548.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:37:31: 17000000 INFO @ Wed, 22 Jul 2020 13:37:32: 23000000 INFO @ Wed, 22 Jul 2020 13:37:40: 24000000 INFO @ Wed, 22 Jul 2020 13:37:40: 18000000 INFO @ Wed, 22 Jul 2020 13:37:47: 25000000 INFO @ Wed, 22 Jul 2020 13:37:49: 19000000 INFO @ Wed, 22 Jul 2020 13:37:55: 26000000 INFO @ Wed, 22 Jul 2020 13:37:57: 20000000 INFO @ Wed, 22 Jul 2020 13:38:00: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:38:00: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:38:00: #1 total tags in treatment: 11261080 INFO @ Wed, 22 Jul 2020 13:38:00: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:38:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:38:00: #1 tags after filtering in treatment: 7802236 INFO @ Wed, 22 Jul 2020 13:38:00: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 13:38:00: #1 finished! INFO @ Wed, 22 Jul 2020 13:38:00: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:38:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:38:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:38:00: 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 @ Wed, 22 Jul 2020 13:38:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.10_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/SRX6911548/SRX6911548.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:38:05: 21000000 INFO @ Wed, 22 Jul 2020 13:38:13: 22000000 INFO @ Wed, 22 Jul 2020 13:38:21: 23000000 INFO @ Wed, 22 Jul 2020 13:38:29: 24000000 INFO @ Wed, 22 Jul 2020 13:38:37: 25000000 INFO @ Wed, 22 Jul 2020 13:38:46: 26000000 INFO @ Wed, 22 Jul 2020 13:38:51: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:38:51: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:38:51: #1 total tags in treatment: 11261080 INFO @ Wed, 22 Jul 2020 13:38:51: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:38:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:38:51: #1 tags after filtering in treatment: 7802236 INFO @ Wed, 22 Jul 2020 13:38:51: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 13:38:51: #1 finished! INFO @ Wed, 22 Jul 2020 13:38:51: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:38:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:38:51: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:38:51: 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 @ Wed, 22 Jul 2020 13:38:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.20_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/SRX6911548/SRX6911548.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911548/SRX6911548.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling