Job ID = 6528411 SRX = SRX5865777 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:58:09 prefetch.2.10.7: 1) Downloading 'SRR9090628'... 2020-06-29T14:58:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:03:45 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:03:45 prefetch.2.10.7: 1) 'SRR9090628' was downloaded successfully Read 21810898 spots for SRR9090628/SRR9090628.sra Written 21810898 spots for SRR9090628/SRR9090628.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: 00:35:08 21810898 reads; of these: 21810898 (100.00%) were paired; of these: 2368669 (10.86%) aligned concordantly 0 times 14880385 (68.22%) aligned concordantly exactly 1 time 4561844 (20.92%) aligned concordantly >1 times ---- 2368669 pairs aligned concordantly 0 times; of these: 248345 (10.48%) aligned discordantly 1 time ---- 2120324 pairs aligned 0 times concordantly or discordantly; of these: 4240648 mates make up the pairs; of these: 3489988 (82.30%) aligned 0 times 485170 (11.44%) aligned exactly 1 time 265490 (6.26%) aligned >1 times 92.00% overall alignment rate Time searching: 00:35:08 Overall time: 00:35:08 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 20 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 1232407 / 19637543 = 0.0628 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 @ Tue, 30 Jun 2020 01:04:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 01:04:35: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:04:35: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:04:40: 1000000 INFO @ Tue, 30 Jun 2020 01:04:46: 2000000 INFO @ Tue, 30 Jun 2020 01:04:51: 3000000 INFO @ Tue, 30 Jun 2020 01:04:57: 4000000 INFO @ Tue, 30 Jun 2020 01:05:02: 5000000 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 @ Tue, 30 Jun 2020 01:05:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 01:05:05: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:05:05: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:05:08: 6000000 INFO @ Tue, 30 Jun 2020 01:05:11: 1000000 INFO @ Tue, 30 Jun 2020 01:05:15: 7000000 INFO @ Tue, 30 Jun 2020 01:05:18: 2000000 INFO @ Tue, 30 Jun 2020 01:05:21: 8000000 INFO @ Tue, 30 Jun 2020 01:05:24: 3000000 INFO @ Tue, 30 Jun 2020 01:05:27: 9000000 INFO @ Tue, 30 Jun 2020 01:05:31: 4000000 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 @ Tue, 30 Jun 2020 01:05:34: 10000000 INFO @ Tue, 30 Jun 2020 01:05:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 01:05:35: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:05:35: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:05:38: 5000000 INFO @ Tue, 30 Jun 2020 01:05:41: 11000000 INFO @ Tue, 30 Jun 2020 01:05:42: 1000000 INFO @ Tue, 30 Jun 2020 01:05:45: 6000000 INFO @ Tue, 30 Jun 2020 01:05:48: 12000000 INFO @ Tue, 30 Jun 2020 01:05:49: 2000000 INFO @ Tue, 30 Jun 2020 01:05:52: 7000000 INFO @ Tue, 30 Jun 2020 01:05:54: 13000000 INFO @ Tue, 30 Jun 2020 01:05:56: 3000000 INFO @ Tue, 30 Jun 2020 01:05:59: 8000000 INFO @ Tue, 30 Jun 2020 01:06:01: 14000000 INFO @ Tue, 30 Jun 2020 01:06:03: 4000000 INFO @ Tue, 30 Jun 2020 01:06:06: 9000000 INFO @ Tue, 30 Jun 2020 01:06:08: 15000000 INFO @ Tue, 30 Jun 2020 01:06:09: 5000000 INFO @ Tue, 30 Jun 2020 01:06:12: 10000000 INFO @ Tue, 30 Jun 2020 01:06:15: 16000000 INFO @ Tue, 30 Jun 2020 01:06:16: 6000000 INFO @ Tue, 30 Jun 2020 01:06:19: 11000000 INFO @ Tue, 30 Jun 2020 01:06:21: 17000000 INFO @ Tue, 30 Jun 2020 01:06:23: 7000000 INFO @ Tue, 30 Jun 2020 01:06:26: 12000000 INFO @ Tue, 30 Jun 2020 01:06:28: 18000000 INFO @ Tue, 30 Jun 2020 01:06:30: 8000000 INFO @ Tue, 30 Jun 2020 01:06:33: 13000000 INFO @ Tue, 30 Jun 2020 01:06:35: 19000000 INFO @ Tue, 30 Jun 2020 01:06:36: 9000000 INFO @ Tue, 30 Jun 2020 01:06:39: 14000000 INFO @ Tue, 30 Jun 2020 01:06:41: 20000000 INFO @ Tue, 30 Jun 2020 01:06:43: 10000000 INFO @ Tue, 30 Jun 2020 01:06:46: 15000000 INFO @ Tue, 30 Jun 2020 01:06:48: 21000000 INFO @ Tue, 30 Jun 2020 01:06:50: 11000000 INFO @ Tue, 30 Jun 2020 01:06:53: 16000000 INFO @ Tue, 30 Jun 2020 01:06:55: 22000000 INFO @ Tue, 30 Jun 2020 01:06:56: 12000000 INFO @ Tue, 30 Jun 2020 01:06:59: 17000000 INFO @ Tue, 30 Jun 2020 01:07:01: 23000000 INFO @ Tue, 30 Jun 2020 01:07:03: 13000000 INFO @ Tue, 30 Jun 2020 01:07:06: 18000000 INFO @ Tue, 30 Jun 2020 01:07:08: 24000000 INFO @ Tue, 30 Jun 2020 01:07:10: 14000000 INFO @ Tue, 30 Jun 2020 01:07:13: 19000000 INFO @ Tue, 30 Jun 2020 01:07:15: 25000000 INFO @ Tue, 30 Jun 2020 01:07:16: 15000000 INFO @ Tue, 30 Jun 2020 01:07:19: 20000000 INFO @ Tue, 30 Jun 2020 01:07:21: 26000000 INFO @ Tue, 30 Jun 2020 01:07:23: 16000000 INFO @ Tue, 30 Jun 2020 01:07:26: 21000000 INFO @ Tue, 30 Jun 2020 01:07:28: 27000000 INFO @ Tue, 30 Jun 2020 01:07:30: 17000000 INFO @ Tue, 30 Jun 2020 01:07:32: 22000000 INFO @ Tue, 30 Jun 2020 01:07:34: 28000000 INFO @ Tue, 30 Jun 2020 01:07:36: 18000000 INFO @ Tue, 30 Jun 2020 01:07:39: 23000000 INFO @ Tue, 30 Jun 2020 01:07:41: 29000000 INFO @ Tue, 30 Jun 2020 01:07:43: 19000000 INFO @ Tue, 30 Jun 2020 01:07:46: 24000000 INFO @ Tue, 30 Jun 2020 01:07:48: 30000000 INFO @ Tue, 30 Jun 2020 01:07:50: 20000000 INFO @ Tue, 30 Jun 2020 01:07:52: 25000000 INFO @ Tue, 30 Jun 2020 01:07:54: 31000000 INFO @ Tue, 30 Jun 2020 01:07:56: 21000000 INFO @ Tue, 30 Jun 2020 01:07:59: 26000000 INFO @ Tue, 30 Jun 2020 01:08:01: 32000000 INFO @ Tue, 30 Jun 2020 01:08:03: 22000000 INFO @ Tue, 30 Jun 2020 01:08:06: 27000000 INFO @ Tue, 30 Jun 2020 01:08:07: 33000000 INFO @ Tue, 30 Jun 2020 01:08:09: 23000000 INFO @ Tue, 30 Jun 2020 01:08:12: 28000000 INFO @ Tue, 30 Jun 2020 01:08:14: 34000000 INFO @ Tue, 30 Jun 2020 01:08:16: 24000000 INFO @ Tue, 30 Jun 2020 01:08:19: 29000000 INFO @ Tue, 30 Jun 2020 01:08:21: 35000000 INFO @ Tue, 30 Jun 2020 01:08:23: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:08:26: 30000000 INFO @ Tue, 30 Jun 2020 01:08:28: 36000000 INFO @ Tue, 30 Jun 2020 01:08:30: 26000000 INFO @ Tue, 30 Jun 2020 01:08:33: 31000000 INFO @ Tue, 30 Jun 2020 01:08:35: 37000000 INFO @ Tue, 30 Jun 2020 01:08:37: 27000000 INFO @ Tue, 30 Jun 2020 01:08:40: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:08:40: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:08:40: #1 total tags in treatment: 18217216 INFO @ Tue, 30 Jun 2020 01:08:40: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:08:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:08:40: #1 tags after filtering in treatment: 15586654 INFO @ Tue, 30 Jun 2020 01:08:40: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 30 Jun 2020 01:08:40: #1 finished! INFO @ Tue, 30 Jun 2020 01:08:40: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:08:40: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:08:40: 32000000 INFO @ Tue, 30 Jun 2020 01:08:41: #2 number of paired peaks: 5 WARNING @ Tue, 30 Jun 2020 01:08:41: Too few paired peaks (5) 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 @ Tue, 30 Jun 2020 01:08:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.05_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/dm3/SRX5865777/SRX5865777.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:08:44: 28000000 INFO @ Tue, 30 Jun 2020 01:08:47: 33000000 INFO @ Tue, 30 Jun 2020 01:08:51: 29000000 INFO @ Tue, 30 Jun 2020 01:08:54: 34000000 INFO @ Tue, 30 Jun 2020 01:08:58: 30000000 INFO @ Tue, 30 Jun 2020 01:09:00: 35000000 INFO @ Tue, 30 Jun 2020 01:09:05: 31000000 INFO @ Tue, 30 Jun 2020 01:09:07: 36000000 INFO @ Tue, 30 Jun 2020 01:09:12: 32000000 INFO @ Tue, 30 Jun 2020 01:09:14: 37000000 INFO @ Tue, 30 Jun 2020 01:09:18: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:09:18: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:09:18: #1 total tags in treatment: 18217216 INFO @ Tue, 30 Jun 2020 01:09:18: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:09:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:09:19: 33000000 INFO @ Tue, 30 Jun 2020 01:09:19: #1 tags after filtering in treatment: 15586654 INFO @ Tue, 30 Jun 2020 01:09:19: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 30 Jun 2020 01:09:19: #1 finished! INFO @ Tue, 30 Jun 2020 01:09:19: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:09:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:09:20: #2 number of paired peaks: 5 WARNING @ Tue, 30 Jun 2020 01:09:20: Too few paired peaks (5) 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 @ Tue, 30 Jun 2020 01:09:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.10_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/dm3/SRX5865777/SRX5865777.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:09:25: 34000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:09:31: 35000000 INFO @ Tue, 30 Jun 2020 01:09:37: 36000000 INFO @ Tue, 30 Jun 2020 01:09:43: 37000000 INFO @ Tue, 30 Jun 2020 01:09:48: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:09:48: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:09:48: #1 total tags in treatment: 18217216 INFO @ Tue, 30 Jun 2020 01:09:48: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:09:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:09:48: #1 tags after filtering in treatment: 15586654 INFO @ Tue, 30 Jun 2020 01:09:48: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 30 Jun 2020 01:09:48: #1 finished! INFO @ Tue, 30 Jun 2020 01:09:48: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:09:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:09:49: #2 number of paired peaks: 5 WARNING @ Tue, 30 Jun 2020 01:09:49: Too few paired peaks (5) 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 @ Tue, 30 Jun 2020 01:09:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.20_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/dm3/SRX5865777/SRX5865777.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865777/SRX5865777.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling