Job ID = 6527427 SRX = ERX1818262 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T12:31:04 prefetch.2.10.7: 1) Downloading 'ERR1749065'... 2020-06-29T12:31:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:44:00 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:44:00 prefetch.2.10.7: 1) 'ERR1749065' was downloaded successfully Read 73099222 spots for ERR1749065/ERR1749065.sra Written 73099222 spots for ERR1749065/ERR1749065.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: 00:56:38 73099222 reads; of these: 73099222 (100.00%) were paired; of these: 30472985 (41.69%) aligned concordantly 0 times 21427884 (29.31%) aligned concordantly exactly 1 time 21198353 (29.00%) aligned concordantly >1 times ---- 30472985 pairs aligned concordantly 0 times; of these: 630339 (2.07%) aligned discordantly 1 time ---- 29842646 pairs aligned 0 times concordantly or discordantly; of these: 59685292 mates make up the pairs; of these: 57666003 (96.62%) aligned 0 times 986556 (1.65%) aligned exactly 1 time 1032733 (1.73%) aligned >1 times 60.56% overall alignment rate Time searching: 00:56:38 Overall time: 00:56:38 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 40 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] 22868582 / 43216722 = 0.5292 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 23:36:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.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 23:36:49: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:36:49: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:36:55: 1000000 INFO @ Mon, 29 Jun 2020 23:37:02: 2000000 INFO @ Mon, 29 Jun 2020 23:37:07: 3000000 INFO @ Mon, 29 Jun 2020 23:37:13: 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 @ Mon, 29 Jun 2020 23:37:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.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 23:37:19: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:37:19: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:37:19: 5000000 INFO @ Mon, 29 Jun 2020 23:37:26: 1000000 INFO @ Mon, 29 Jun 2020 23:37:26: 6000000 INFO @ Mon, 29 Jun 2020 23:37:32: 2000000 INFO @ Mon, 29 Jun 2020 23:37:33: 7000000 INFO @ Mon, 29 Jun 2020 23:37:39: 3000000 INFO @ Mon, 29 Jun 2020 23:37:40: 8000000 INFO @ Mon, 29 Jun 2020 23:37:46: 4000000 INFO @ Mon, 29 Jun 2020 23:37:47: 9000000 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 23:37:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.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 23:37:49: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:37:49: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:37:53: 5000000 INFO @ Mon, 29 Jun 2020 23:37:54: 10000000 INFO @ Mon, 29 Jun 2020 23:37:56: 1000000 INFO @ Mon, 29 Jun 2020 23:37:59: 6000000 INFO @ Mon, 29 Jun 2020 23:38:01: 11000000 INFO @ Mon, 29 Jun 2020 23:38:02: 2000000 INFO @ Mon, 29 Jun 2020 23:38:06: 7000000 INFO @ Mon, 29 Jun 2020 23:38:08: 12000000 INFO @ Mon, 29 Jun 2020 23:38:09: 3000000 INFO @ Mon, 29 Jun 2020 23:38:12: 8000000 INFO @ Mon, 29 Jun 2020 23:38:15: 13000000 INFO @ Mon, 29 Jun 2020 23:38:16: 4000000 INFO @ Mon, 29 Jun 2020 23:38:19: 9000000 INFO @ Mon, 29 Jun 2020 23:38:22: 14000000 INFO @ Mon, 29 Jun 2020 23:38:23: 5000000 INFO @ Mon, 29 Jun 2020 23:38:26: 10000000 INFO @ Mon, 29 Jun 2020 23:38:29: 15000000 INFO @ Mon, 29 Jun 2020 23:38:30: 6000000 INFO @ Mon, 29 Jun 2020 23:38:32: 11000000 INFO @ Mon, 29 Jun 2020 23:38:36: 16000000 INFO @ Mon, 29 Jun 2020 23:38:36: 7000000 INFO @ Mon, 29 Jun 2020 23:38:39: 12000000 INFO @ Mon, 29 Jun 2020 23:38:43: 17000000 INFO @ Mon, 29 Jun 2020 23:38:43: 8000000 INFO @ Mon, 29 Jun 2020 23:38:46: 13000000 INFO @ Mon, 29 Jun 2020 23:38:49: 9000000 INFO @ Mon, 29 Jun 2020 23:38:50: 18000000 INFO @ Mon, 29 Jun 2020 23:38:52: 14000000 INFO @ Mon, 29 Jun 2020 23:38:56: 19000000 INFO @ Mon, 29 Jun 2020 23:38:56: 10000000 INFO @ Mon, 29 Jun 2020 23:38:59: 15000000 INFO @ Mon, 29 Jun 2020 23:39:03: 20000000 INFO @ Mon, 29 Jun 2020 23:39:03: 11000000 INFO @ Mon, 29 Jun 2020 23:39:06: 16000000 INFO @ Mon, 29 Jun 2020 23:39:10: 12000000 INFO @ Mon, 29 Jun 2020 23:39:10: 21000000 INFO @ Mon, 29 Jun 2020 23:39:12: 17000000 INFO @ Mon, 29 Jun 2020 23:39:16: 13000000 INFO @ Mon, 29 Jun 2020 23:39:16: 22000000 INFO @ Mon, 29 Jun 2020 23:39:18: 18000000 INFO @ Mon, 29 Jun 2020 23:39:22: 14000000 INFO @ Mon, 29 Jun 2020 23:39:23: 23000000 INFO @ Mon, 29 Jun 2020 23:39:25: 19000000 INFO @ Mon, 29 Jun 2020 23:39:29: 15000000 INFO @ Mon, 29 Jun 2020 23:39:30: 24000000 INFO @ Mon, 29 Jun 2020 23:39:31: 20000000 INFO @ Mon, 29 Jun 2020 23:39:35: 16000000 INFO @ Mon, 29 Jun 2020 23:39:37: 25000000 INFO @ Mon, 29 Jun 2020 23:39:38: 21000000 INFO @ Mon, 29 Jun 2020 23:39:42: 17000000 INFO @ Mon, 29 Jun 2020 23:39:43: 26000000 INFO @ Mon, 29 Jun 2020 23:39:44: 22000000 INFO @ Mon, 29 Jun 2020 23:39:48: 18000000 INFO @ Mon, 29 Jun 2020 23:39:50: 27000000 INFO @ Mon, 29 Jun 2020 23:39:51: 23000000 INFO @ Mon, 29 Jun 2020 23:39:55: 19000000 INFO @ Mon, 29 Jun 2020 23:39:56: 28000000 INFO @ Mon, 29 Jun 2020 23:39:57: 24000000 INFO @ Mon, 29 Jun 2020 23:40:01: 20000000 INFO @ Mon, 29 Jun 2020 23:40:03: 29000000 INFO @ Mon, 29 Jun 2020 23:40:03: 25000000 INFO @ Mon, 29 Jun 2020 23:40:07: 21000000 INFO @ Mon, 29 Jun 2020 23:40:09: 26000000 INFO @ Mon, 29 Jun 2020 23:40:09: 30000000 INFO @ Mon, 29 Jun 2020 23:40:14: 22000000 INFO @ Mon, 29 Jun 2020 23:40:15: 27000000 INFO @ Mon, 29 Jun 2020 23:40:16: 31000000 INFO @ Mon, 29 Jun 2020 23:40:20: 23000000 INFO @ Mon, 29 Jun 2020 23:40:21: 28000000 INFO @ Mon, 29 Jun 2020 23:40:22: 32000000 INFO @ Mon, 29 Jun 2020 23:40:26: 24000000 INFO @ Mon, 29 Jun 2020 23:40:27: 29000000 INFO @ Mon, 29 Jun 2020 23:40:28: 33000000 INFO @ Mon, 29 Jun 2020 23:40:32: 25000000 INFO @ Mon, 29 Jun 2020 23:40:33: 30000000 INFO @ Mon, 29 Jun 2020 23:40:35: 34000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:40:38: 26000000 INFO @ Mon, 29 Jun 2020 23:40:40: 31000000 INFO @ Mon, 29 Jun 2020 23:40:41: 35000000 INFO @ Mon, 29 Jun 2020 23:40:44: 27000000 INFO @ Mon, 29 Jun 2020 23:40:46: 32000000 INFO @ Mon, 29 Jun 2020 23:40:48: 36000000 INFO @ Mon, 29 Jun 2020 23:40:50: 28000000 INFO @ Mon, 29 Jun 2020 23:40:52: 33000000 INFO @ Mon, 29 Jun 2020 23:40:55: 37000000 INFO @ Mon, 29 Jun 2020 23:40:56: 29000000 INFO @ Mon, 29 Jun 2020 23:40:58: 34000000 INFO @ Mon, 29 Jun 2020 23:41:02: 38000000 INFO @ Mon, 29 Jun 2020 23:41:03: 30000000 INFO @ Mon, 29 Jun 2020 23:41:04: 35000000 INFO @ Mon, 29 Jun 2020 23:41:08: 39000000 INFO @ Mon, 29 Jun 2020 23:41:09: 31000000 INFO @ Mon, 29 Jun 2020 23:41:10: 36000000 INFO @ Mon, 29 Jun 2020 23:41:15: 32000000 INFO @ Mon, 29 Jun 2020 23:41:15: 40000000 INFO @ Mon, 29 Jun 2020 23:41:17: 37000000 INFO @ Mon, 29 Jun 2020 23:41:21: 33000000 INFO @ Mon, 29 Jun 2020 23:41:21: 41000000 INFO @ Mon, 29 Jun 2020 23:41:23: 38000000 INFO @ Mon, 29 Jun 2020 23:41:27: 34000000 INFO @ Mon, 29 Jun 2020 23:41:28: 42000000 INFO @ Mon, 29 Jun 2020 23:41:29: 39000000 INFO @ Mon, 29 Jun 2020 23:41:33: 35000000 INFO @ Mon, 29 Jun 2020 23:41:33: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:41:33: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:41:33: #1 total tags in treatment: 19941115 INFO @ Mon, 29 Jun 2020 23:41:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:41:33: #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 23:41:34: #1 tags after filtering in treatment: 14866026 INFO @ Mon, 29 Jun 2020 23:41:34: #1 Redundant rate of treatment: 0.25 INFO @ Mon, 29 Jun 2020 23:41:34: #1 finished! INFO @ Mon, 29 Jun 2020 23:41:34: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:41:34: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:41:35: #2 number of paired peaks: 91 WARNING @ Mon, 29 Jun 2020 23:41:35: Too few paired peaks (91) 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 23:41:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.05_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/ERX1818262/ERX1818262.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:41:36: 40000000 INFO @ Mon, 29 Jun 2020 23:41:39: 36000000 INFO @ Mon, 29 Jun 2020 23:41:42: 41000000 INFO @ Mon, 29 Jun 2020 23:41:45: 37000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:41:48: 42000000 INFO @ Mon, 29 Jun 2020 23:41:52: 38000000 INFO @ Mon, 29 Jun 2020 23:41:52: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:41:52: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:41:52: #1 total tags in treatment: 19941115 INFO @ Mon, 29 Jun 2020 23:41:52: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:41:52: #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 23:41:53: #1 tags after filtering in treatment: 14866026 INFO @ Mon, 29 Jun 2020 23:41:53: #1 Redundant rate of treatment: 0.25 INFO @ Mon, 29 Jun 2020 23:41:53: #1 finished! INFO @ Mon, 29 Jun 2020 23:41:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:41:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:41:54: #2 number of paired peaks: 91 WARNING @ Mon, 29 Jun 2020 23:41:54: Too few paired peaks (91) 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 23:41:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.10_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/ERX1818262/ERX1818262.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:41:57: 39000000 INFO @ Mon, 29 Jun 2020 23:42:03: 40000000 INFO @ Mon, 29 Jun 2020 23:42:09: 41000000 INFO @ Mon, 29 Jun 2020 23:42:14: 42000000 INFO @ Mon, 29 Jun 2020 23:42:19: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:42:19: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:42:19: #1 total tags in treatment: 19941115 INFO @ Mon, 29 Jun 2020 23:42:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:42:19: #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 23:42:19: #1 tags after filtering in treatment: 14866026 INFO @ Mon, 29 Jun 2020 23:42:19: #1 Redundant rate of treatment: 0.25 INFO @ Mon, 29 Jun 2020 23:42:19: #1 finished! INFO @ Mon, 29 Jun 2020 23:42:19: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:42:19: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:42:20: #2 number of paired peaks: 91 WARNING @ Mon, 29 Jun 2020 23:42:20: Too few paired peaks (91) 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 23:42:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.20_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/dm3/ERX1818262/ERX1818262.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX1818262/ERX1818262.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling