Job ID = 6527435 SRX = ERX1818287 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T12:13:15 prefetch.2.10.7: 1) Downloading 'ERR1749090'... 2020-06-29T12:13:15 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:24:07 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:24:07 prefetch.2.10.7: 1) 'ERR1749090' was downloaded successfully Read 25327154 spots for ERR1749090/ERR1749090.sra Written 25327154 spots for ERR1749090/ERR1749090.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: 01:20:49 25327154 reads; of these: 25327154 (100.00%) were paired; of these: 2056999 (8.12%) aligned concordantly 0 times 16818119 (66.40%) aligned concordantly exactly 1 time 6452036 (25.47%) aligned concordantly >1 times ---- 2056999 pairs aligned concordantly 0 times; of these: 241245 (11.73%) aligned discordantly 1 time ---- 1815754 pairs aligned 0 times concordantly or discordantly; of these: 3631508 mates make up the pairs; of these: 2299009 (63.31%) aligned 0 times 701920 (19.33%) aligned exactly 1 time 630579 (17.36%) aligned >1 times 95.46% overall alignment rate Time searching: 01:20:49 Overall time: 01:20:49 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] 1301952 / 23374560 = 0.0557 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 @ Mon, 29 Jun 2020 23:29:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.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 @ Mon, 29 Jun 2020 23:29:09: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:29:09: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:29:17: 1000000 INFO @ Mon, 29 Jun 2020 23:29:25: 2000000 INFO @ Mon, 29 Jun 2020 23:29:33: 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 @ Mon, 29 Jun 2020 23:29:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.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 @ Mon, 29 Jun 2020 23:29:39: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:29:39: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:29:41: 4000000 INFO @ Mon, 29 Jun 2020 23:29:47: 1000000 INFO @ Mon, 29 Jun 2020 23:29:49: 5000000 INFO @ Mon, 29 Jun 2020 23:29:56: 2000000 INFO @ Mon, 29 Jun 2020 23:29:57: 6000000 INFO @ Mon, 29 Jun 2020 23:30:04: 3000000 INFO @ Mon, 29 Jun 2020 23:30:06: 7000000 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 @ Mon, 29 Jun 2020 23:30:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.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 @ Mon, 29 Jun 2020 23:30:09: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:30:09: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:30:12: 4000000 INFO @ Mon, 29 Jun 2020 23:30:14: 8000000 INFO @ Mon, 29 Jun 2020 23:30:17: 1000000 INFO @ Mon, 29 Jun 2020 23:30:21: 5000000 INFO @ Mon, 29 Jun 2020 23:30:23: 9000000 INFO @ Mon, 29 Jun 2020 23:30:25: 2000000 INFO @ Mon, 29 Jun 2020 23:30:30: 6000000 INFO @ Mon, 29 Jun 2020 23:30:31: 10000000 INFO @ Mon, 29 Jun 2020 23:30:33: 3000000 INFO @ Mon, 29 Jun 2020 23:30:38: 7000000 INFO @ Mon, 29 Jun 2020 23:30:40: 11000000 INFO @ Mon, 29 Jun 2020 23:30:41: 4000000 INFO @ Mon, 29 Jun 2020 23:30:47: 8000000 INFO @ Mon, 29 Jun 2020 23:30:48: 5000000 INFO @ Mon, 29 Jun 2020 23:30:48: 12000000 INFO @ Mon, 29 Jun 2020 23:30:55: 9000000 INFO @ Mon, 29 Jun 2020 23:30:56: 6000000 INFO @ Mon, 29 Jun 2020 23:30:57: 13000000 INFO @ Mon, 29 Jun 2020 23:31:04: 10000000 INFO @ Mon, 29 Jun 2020 23:31:04: 7000000 INFO @ Mon, 29 Jun 2020 23:31:05: 14000000 INFO @ Mon, 29 Jun 2020 23:31:12: 8000000 INFO @ Mon, 29 Jun 2020 23:31:12: 11000000 INFO @ Mon, 29 Jun 2020 23:31:14: 15000000 INFO @ Mon, 29 Jun 2020 23:31:19: 9000000 INFO @ Mon, 29 Jun 2020 23:31:21: 12000000 INFO @ Mon, 29 Jun 2020 23:31:23: 16000000 INFO @ Mon, 29 Jun 2020 23:31:27: 10000000 INFO @ Mon, 29 Jun 2020 23:31:29: 13000000 INFO @ Mon, 29 Jun 2020 23:31:32: 17000000 INFO @ Mon, 29 Jun 2020 23:31:35: 11000000 INFO @ Mon, 29 Jun 2020 23:31:38: 14000000 INFO @ Mon, 29 Jun 2020 23:31:41: 18000000 INFO @ Mon, 29 Jun 2020 23:31:43: 12000000 INFO @ Mon, 29 Jun 2020 23:31:46: 15000000 INFO @ Mon, 29 Jun 2020 23:31:49: 19000000 INFO @ Mon, 29 Jun 2020 23:31:50: 13000000 INFO @ Mon, 29 Jun 2020 23:31:55: 16000000 INFO @ Mon, 29 Jun 2020 23:31:58: 20000000 INFO @ Mon, 29 Jun 2020 23:31:58: 14000000 INFO @ Mon, 29 Jun 2020 23:32:04: 17000000 INFO @ Mon, 29 Jun 2020 23:32:05: 15000000 INFO @ Mon, 29 Jun 2020 23:32:06: 21000000 INFO @ Mon, 29 Jun 2020 23:32:13: 16000000 INFO @ Mon, 29 Jun 2020 23:32:13: 18000000 INFO @ Mon, 29 Jun 2020 23:32:15: 22000000 INFO @ Mon, 29 Jun 2020 23:32:20: 17000000 INFO @ Mon, 29 Jun 2020 23:32:22: 19000000 INFO @ Mon, 29 Jun 2020 23:32:23: 23000000 INFO @ Mon, 29 Jun 2020 23:32:28: 18000000 INFO @ Mon, 29 Jun 2020 23:32:30: 20000000 INFO @ Mon, 29 Jun 2020 23:32:32: 24000000 INFO @ Mon, 29 Jun 2020 23:32:36: 19000000 INFO @ Mon, 29 Jun 2020 23:32:39: 21000000 INFO @ Mon, 29 Jun 2020 23:32:40: 25000000 INFO @ Mon, 29 Jun 2020 23:32:43: 20000000 INFO @ Mon, 29 Jun 2020 23:32:47: 22000000 INFO @ Mon, 29 Jun 2020 23:32:49: 26000000 INFO @ Mon, 29 Jun 2020 23:32:51: 21000000 INFO @ Mon, 29 Jun 2020 23:32:56: 23000000 INFO @ Mon, 29 Jun 2020 23:32:57: 27000000 INFO @ Mon, 29 Jun 2020 23:32:59: 22000000 INFO @ Mon, 29 Jun 2020 23:33:04: 24000000 INFO @ Mon, 29 Jun 2020 23:33:06: 28000000 INFO @ Mon, 29 Jun 2020 23:33:06: 23000000 INFO @ Mon, 29 Jun 2020 23:33:13: 25000000 INFO @ Mon, 29 Jun 2020 23:33:14: 24000000 INFO @ Mon, 29 Jun 2020 23:33:14: 29000000 INFO @ Mon, 29 Jun 2020 23:33:21: 26000000 INFO @ Mon, 29 Jun 2020 23:33:22: 25000000 INFO @ Mon, 29 Jun 2020 23:33:23: 30000000 INFO @ Mon, 29 Jun 2020 23:33:30: 26000000 INFO @ Mon, 29 Jun 2020 23:33:30: 27000000 INFO @ Mon, 29 Jun 2020 23:33:31: 31000000 INFO @ Mon, 29 Jun 2020 23:33:37: 27000000 INFO @ Mon, 29 Jun 2020 23:33:38: 28000000 INFO @ Mon, 29 Jun 2020 23:33:40: 32000000 INFO @ Mon, 29 Jun 2020 23:33:45: 28000000 INFO @ Mon, 29 Jun 2020 23:33:47: 29000000 INFO @ Mon, 29 Jun 2020 23:33:48: 33000000 INFO @ Mon, 29 Jun 2020 23:33:52: 29000000 INFO @ Mon, 29 Jun 2020 23:33:55: 30000000 INFO @ Mon, 29 Jun 2020 23:33:57: 34000000 INFO @ Mon, 29 Jun 2020 23:34:00: 30000000 INFO @ Mon, 29 Jun 2020 23:34:03: 31000000 INFO @ Mon, 29 Jun 2020 23:34:05: 35000000 INFO @ Mon, 29 Jun 2020 23:34:07: 31000000 INFO @ Mon, 29 Jun 2020 23:34:12: 32000000 INFO @ Mon, 29 Jun 2020 23:34:14: 32000000 INFO @ Mon, 29 Jun 2020 23:34:14: 36000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:34:20: 33000000 INFO @ Mon, 29 Jun 2020 23:34:21: 33000000 INFO @ Mon, 29 Jun 2020 23:34:22: 37000000 INFO @ Mon, 29 Jun 2020 23:34:29: 34000000 INFO @ Mon, 29 Jun 2020 23:34:29: 34000000 INFO @ Mon, 29 Jun 2020 23:34:31: 38000000 INFO @ Mon, 29 Jun 2020 23:34:36: 35000000 INFO @ Mon, 29 Jun 2020 23:34:37: 35000000 INFO @ Mon, 29 Jun 2020 23:34:40: 39000000 INFO @ Mon, 29 Jun 2020 23:34:43: 36000000 INFO @ Mon, 29 Jun 2020 23:34:46: 36000000 INFO @ Mon, 29 Jun 2020 23:34:49: 40000000 INFO @ Mon, 29 Jun 2020 23:34:50: 37000000 INFO @ Mon, 29 Jun 2020 23:34:55: 37000000 INFO @ Mon, 29 Jun 2020 23:34:57: 38000000 INFO @ Mon, 29 Jun 2020 23:34:58: 41000000 INFO @ Mon, 29 Jun 2020 23:35:04: 38000000 INFO @ Mon, 29 Jun 2020 23:35:05: 39000000 INFO @ Mon, 29 Jun 2020 23:35:06: 42000000 INFO @ Mon, 29 Jun 2020 23:35:12: 40000000 INFO @ Mon, 29 Jun 2020 23:35:13: 39000000 INFO @ Mon, 29 Jun 2020 23:35:15: 43000000 INFO @ Mon, 29 Jun 2020 23:35:19: 41000000 INFO @ Mon, 29 Jun 2020 23:35:21: 40000000 INFO @ Mon, 29 Jun 2020 23:35:24: 44000000 INFO @ Mon, 29 Jun 2020 23:35:26: 42000000 INFO @ Mon, 29 Jun 2020 23:35:30: 41000000 INFO @ Mon, 29 Jun 2020 23:35:33: 45000000 INFO @ Mon, 29 Jun 2020 23:35:34: 43000000 INFO @ Mon, 29 Jun 2020 23:35:39: 42000000 INFO @ Mon, 29 Jun 2020 23:35:39: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 23:35:39: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 23:35:39: #1 total tags in treatment: 21971355 INFO @ Mon, 29 Jun 2020 23:35:39: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:35:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:35:40: #1 tags after filtering in treatment: 20396688 INFO @ Mon, 29 Jun 2020 23:35:40: #1 Redundant rate of treatment: 0.07 INFO @ Mon, 29 Jun 2020 23:35:40: #1 finished! INFO @ Mon, 29 Jun 2020 23:35:40: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:35:40: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:35:41: 44000000 INFO @ Mon, 29 Jun 2020 23:35:41: #2 number of paired peaks: 64 WARNING @ Mon, 29 Jun 2020 23:35:41: Too few paired peaks (64) 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 @ Mon, 29 Jun 2020 23:35:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.05_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/dm3/ERX1818287/ERX1818287.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:35:47: 43000000 INFO @ Mon, 29 Jun 2020 23:35:48: 45000000 INFO @ Mon, 29 Jun 2020 23:35:53: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 23:35:53: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 23:35:53: #1 total tags in treatment: 21971355 INFO @ Mon, 29 Jun 2020 23:35:53: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:35:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:35:54: #1 tags after filtering in treatment: 20396688 INFO @ Mon, 29 Jun 2020 23:35:54: #1 Redundant rate of treatment: 0.07 INFO @ Mon, 29 Jun 2020 23:35:54: #1 finished! INFO @ Mon, 29 Jun 2020 23:35:54: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:35:54: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:35:55: #2 number of paired peaks: 64 WARNING @ Mon, 29 Jun 2020 23:35:55: Too few paired peaks (64) 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 @ Mon, 29 Jun 2020 23:35:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.20_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/ERX1818287/ERX1818287.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:35:55: 44000000 INFO @ Mon, 29 Jun 2020 23:36:04: 45000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:36:10: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 23:36:10: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 23:36:10: #1 total tags in treatment: 21971355 INFO @ Mon, 29 Jun 2020 23:36:10: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:36:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:36:11: #1 tags after filtering in treatment: 20396688 INFO @ Mon, 29 Jun 2020 23:36:11: #1 Redundant rate of treatment: 0.07 INFO @ Mon, 29 Jun 2020 23:36:11: #1 finished! INFO @ Mon, 29 Jun 2020 23:36:11: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:36:11: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:36:12: #2 number of paired peaks: 64 WARNING @ Mon, 29 Jun 2020 23:36:12: Too few paired peaks (64) 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 @ Mon, 29 Jun 2020 23:36:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.10_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/dm3/ERX1818287/ERX1818287.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX1818287/ERX1818287.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling