Job ID = 5720174 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-04-15T12:48:39 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:56:28 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:56:28 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 37,516,093 reads read : 75,032,186 reads written : 75,032,186 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: 01:12:46 37516093 reads; of these: 37516093 (100.00%) were paired; of these: 12024176 (32.05%) aligned concordantly 0 times 21532035 (57.39%) aligned concordantly exactly 1 time 3959882 (10.56%) aligned concordantly >1 times ---- 12024176 pairs aligned concordantly 0 times; of these: 8018845 (66.69%) aligned discordantly 1 time ---- 4005331 pairs aligned 0 times concordantly or discordantly; of these: 8010662 mates make up the pairs; of these: 4384741 (54.74%) aligned 0 times 1423123 (17.77%) aligned exactly 1 time 2202798 (27.50%) aligned >1 times 94.16% overall alignment rate Time searching: 01:12:46 Overall time: 01:12:46 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 52 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 chrV... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] 4972769 / 33297201 = 0.1493 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, 15 Apr 2020 23:56:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.bam'] # control file = None # effective genome size = 9.00e+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, 15 Apr 2020 23:56:07: #1 read tag files... INFO @ Wed, 15 Apr 2020 23:56:07: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 23:56:14: 1000000 INFO @ Wed, 15 Apr 2020 23:56:21: 2000000 INFO @ Wed, 15 Apr 2020 23:56:27: 3000000 INFO @ Wed, 15 Apr 2020 23:56:34: 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, 15 Apr 2020 23:56:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.bam'] # control file = None # effective genome size = 9.00e+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, 15 Apr 2020 23:56:37: #1 read tag files... INFO @ Wed, 15 Apr 2020 23:56:37: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 23:56:41: 5000000 INFO @ Wed, 15 Apr 2020 23:56:45: 1000000 INFO @ Wed, 15 Apr 2020 23:56:48: 6000000 INFO @ Wed, 15 Apr 2020 23:56:52: 2000000 INFO @ Wed, 15 Apr 2020 23:56:55: 7000000 INFO @ Wed, 15 Apr 2020 23:56:59: 3000000 INFO @ Wed, 15 Apr 2020 23:57:03: 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, 15 Apr 2020 23:57:06: 4000000 INFO @ Wed, 15 Apr 2020 23:57:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.bam'] # control file = None # effective genome size = 9.00e+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, 15 Apr 2020 23:57:07: #1 read tag files... INFO @ Wed, 15 Apr 2020 23:57:07: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 23:57:10: 9000000 INFO @ Wed, 15 Apr 2020 23:57:14: 5000000 INFO @ Wed, 15 Apr 2020 23:57:15: 1000000 INFO @ Wed, 15 Apr 2020 23:57:18: 10000000 INFO @ Wed, 15 Apr 2020 23:57:22: 6000000 INFO @ Wed, 15 Apr 2020 23:57:23: 2000000 INFO @ Wed, 15 Apr 2020 23:57:25: 11000000 INFO @ Wed, 15 Apr 2020 23:57:30: 7000000 INFO @ Wed, 15 Apr 2020 23:57:31: 3000000 INFO @ Wed, 15 Apr 2020 23:57:33: 12000000 INFO @ Wed, 15 Apr 2020 23:57:37: 8000000 INFO @ Wed, 15 Apr 2020 23:57:39: 4000000 INFO @ Wed, 15 Apr 2020 23:57:40: 13000000 INFO @ Wed, 15 Apr 2020 23:57:45: 9000000 INFO @ Wed, 15 Apr 2020 23:57:46: 5000000 INFO @ Wed, 15 Apr 2020 23:57:47: 14000000 INFO @ Wed, 15 Apr 2020 23:57:52: 10000000 INFO @ Wed, 15 Apr 2020 23:57:54: 6000000 INFO @ Wed, 15 Apr 2020 23:57:55: 15000000 INFO @ Wed, 15 Apr 2020 23:57:59: 11000000 INFO @ Wed, 15 Apr 2020 23:58:01: 7000000 INFO @ Wed, 15 Apr 2020 23:58:02: 16000000 INFO @ Wed, 15 Apr 2020 23:58:07: 12000000 INFO @ Wed, 15 Apr 2020 23:58:09: 8000000 INFO @ Wed, 15 Apr 2020 23:58:09: 17000000 INFO @ Wed, 15 Apr 2020 23:58:14: 13000000 INFO @ Wed, 15 Apr 2020 23:58:16: 9000000 INFO @ Wed, 15 Apr 2020 23:58:17: 18000000 INFO @ Wed, 15 Apr 2020 23:58:21: 14000000 INFO @ Wed, 15 Apr 2020 23:58:24: 10000000 INFO @ Wed, 15 Apr 2020 23:58:24: 19000000 INFO @ Wed, 15 Apr 2020 23:58:29: 15000000 INFO @ Wed, 15 Apr 2020 23:58:31: 11000000 INFO @ Wed, 15 Apr 2020 23:58:31: 20000000 INFO @ Wed, 15 Apr 2020 23:58:36: 16000000 INFO @ Wed, 15 Apr 2020 23:58:38: 12000000 INFO @ Wed, 15 Apr 2020 23:58:39: 21000000 INFO @ Wed, 15 Apr 2020 23:58:43: 17000000 INFO @ Wed, 15 Apr 2020 23:58:46: 13000000 INFO @ Wed, 15 Apr 2020 23:58:46: 22000000 INFO @ Wed, 15 Apr 2020 23:58:50: 18000000 INFO @ Wed, 15 Apr 2020 23:58:53: 14000000 INFO @ Wed, 15 Apr 2020 23:58:53: 23000000 INFO @ Wed, 15 Apr 2020 23:58:58: 19000000 INFO @ Wed, 15 Apr 2020 23:59:00: 15000000 INFO @ Wed, 15 Apr 2020 23:59:01: 24000000 INFO @ Wed, 15 Apr 2020 23:59:05: 20000000 INFO @ Wed, 15 Apr 2020 23:59:08: 16000000 INFO @ Wed, 15 Apr 2020 23:59:08: 25000000 INFO @ Wed, 15 Apr 2020 23:59:13: 21000000 INFO @ Wed, 15 Apr 2020 23:59:15: 17000000 INFO @ Wed, 15 Apr 2020 23:59:15: 26000000 INFO @ Wed, 15 Apr 2020 23:59:20: 22000000 INFO @ Wed, 15 Apr 2020 23:59:22: 18000000 INFO @ Wed, 15 Apr 2020 23:59:22: 27000000 INFO @ Wed, 15 Apr 2020 23:59:27: 23000000 INFO @ Wed, 15 Apr 2020 23:59:30: 28000000 INFO @ Wed, 15 Apr 2020 23:59:30: 19000000 INFO @ Wed, 15 Apr 2020 23:59:34: 24000000 INFO @ Wed, 15 Apr 2020 23:59:37: 29000000 INFO @ Wed, 15 Apr 2020 23:59:37: 20000000 INFO @ Wed, 15 Apr 2020 23:59:42: 25000000 INFO @ Wed, 15 Apr 2020 23:59:44: 30000000 INFO @ Wed, 15 Apr 2020 23:59:44: 21000000 INFO @ Wed, 15 Apr 2020 23:59:49: 26000000 INFO @ Wed, 15 Apr 2020 23:59:51: 31000000 INFO @ Wed, 15 Apr 2020 23:59:52: 22000000 INFO @ Wed, 15 Apr 2020 23:59:56: 27000000 INFO @ Wed, 15 Apr 2020 23:59:59: 32000000 INFO @ Wed, 15 Apr 2020 23:59:59: 23000000 INFO @ Thu, 16 Apr 2020 00:00:03: 28000000 INFO @ Thu, 16 Apr 2020 00:00:06: 24000000 INFO @ Thu, 16 Apr 2020 00:00:07: 33000000 INFO @ Thu, 16 Apr 2020 00:00:10: 29000000 INFO @ Thu, 16 Apr 2020 00:00:13: 25000000 INFO @ Thu, 16 Apr 2020 00:00:15: 34000000 INFO @ Thu, 16 Apr 2020 00:00:18: 30000000 INFO @ Thu, 16 Apr 2020 00:00:21: 26000000 INFO @ Thu, 16 Apr 2020 00:00:24: 35000000 INFO @ Thu, 16 Apr 2020 00:00:25: 31000000 INFO @ Thu, 16 Apr 2020 00:00:28: 27000000 INFO @ Thu, 16 Apr 2020 00:00:32: 36000000 INFO @ Thu, 16 Apr 2020 00:00:32: 32000000 INFO @ Thu, 16 Apr 2020 00:00:35: 28000000 INFO @ Thu, 16 Apr 2020 00:00:40: 37000000 INFO @ Thu, 16 Apr 2020 00:00:40: 33000000 INFO @ Thu, 16 Apr 2020 00:00:42: 29000000 INFO @ Thu, 16 Apr 2020 00:00:48: 38000000 INFO @ Thu, 16 Apr 2020 00:00:49: 34000000 INFO @ Thu, 16 Apr 2020 00:00:50: 30000000 INFO @ Thu, 16 Apr 2020 00:00:56: 39000000 INFO @ Thu, 16 Apr 2020 00:00:57: 35000000 INFO @ Thu, 16 Apr 2020 00:00:57: 31000000 INFO @ Thu, 16 Apr 2020 00:01:04: 32000000 INFO @ Thu, 16 Apr 2020 00:01:04: 40000000 INFO @ Thu, 16 Apr 2020 00:01:05: 36000000 INFO @ Thu, 16 Apr 2020 00:01:11: 41000000 INFO @ Thu, 16 Apr 2020 00:01:12: 33000000 INFO @ Thu, 16 Apr 2020 00:01:13: 37000000 INFO @ Thu, 16 Apr 2020 00:01:18: 42000000 INFO @ Thu, 16 Apr 2020 00:01:21: 34000000 INFO @ Thu, 16 Apr 2020 00:01:21: 38000000 INFO @ Thu, 16 Apr 2020 00:01:25: 43000000 INFO @ Thu, 16 Apr 2020 00:01:29: 35000000 INFO @ Thu, 16 Apr 2020 00:01:29: 39000000 INFO @ Thu, 16 Apr 2020 00:01:33: 44000000 INFO @ Thu, 16 Apr 2020 00:01:37: 36000000 INFO @ Thu, 16 Apr 2020 00:01:37: 40000000 INFO @ Thu, 16 Apr 2020 00:01:40: 45000000 INFO @ Thu, 16 Apr 2020 00:01:44: 41000000 INFO @ Thu, 16 Apr 2020 00:01:45: 37000000 INFO @ Thu, 16 Apr 2020 00:01:47: 46000000 INFO @ Thu, 16 Apr 2020 00:01:51: 42000000 INFO @ Thu, 16 Apr 2020 00:01:54: 38000000 INFO @ Thu, 16 Apr 2020 00:01:54: 47000000 INFO @ Thu, 16 Apr 2020 00:01:59: 43000000 INFO @ Thu, 16 Apr 2020 00:02:01: 48000000 INFO @ Thu, 16 Apr 2020 00:02:02: 39000000 INFO @ Thu, 16 Apr 2020 00:02:06: 44000000 INFO @ Thu, 16 Apr 2020 00:02:08: 49000000 INFO @ Thu, 16 Apr 2020 00:02:10: 40000000 INFO @ Thu, 16 Apr 2020 00:02:13: 45000000 INFO @ Thu, 16 Apr 2020 00:02:15: 50000000 INFO @ Thu, 16 Apr 2020 00:02:17: 41000000 INFO @ Thu, 16 Apr 2020 00:02:20: 46000000 INFO @ Thu, 16 Apr 2020 00:02:22: 51000000 INFO @ Thu, 16 Apr 2020 00:02:24: 42000000 INFO @ Thu, 16 Apr 2020 00:02:27: 47000000 INFO @ Thu, 16 Apr 2020 00:02:29: 52000000 INFO @ Thu, 16 Apr 2020 00:02:32: 43000000 INFO @ Thu, 16 Apr 2020 00:02:34: 48000000 INFO @ Thu, 16 Apr 2020 00:02:36: 53000000 INFO @ Thu, 16 Apr 2020 00:02:39: 44000000 INFO @ Thu, 16 Apr 2020 00:02:41: 49000000 INFO @ Thu, 16 Apr 2020 00:02:44: 54000000 INFO @ Thu, 16 Apr 2020 00:02:46: 45000000 INFO @ Thu, 16 Apr 2020 00:02:48: 50000000 INFO @ Thu, 16 Apr 2020 00:02:51: 55000000 INFO @ Thu, 16 Apr 2020 00:02:53: 46000000 INFO @ Thu, 16 Apr 2020 00:02:55: 51000000 INFO @ Thu, 16 Apr 2020 00:02:59: 56000000 INFO @ Thu, 16 Apr 2020 00:03:00: 47000000 INFO @ Thu, 16 Apr 2020 00:03:03: 52000000 INFO @ Thu, 16 Apr 2020 00:03:06: 57000000 INFO @ Thu, 16 Apr 2020 00:03:08: 48000000 INFO @ Thu, 16 Apr 2020 00:03:10: 53000000 INFO @ Thu, 16 Apr 2020 00:03:13: 58000000 INFO @ Thu, 16 Apr 2020 00:03:15: 49000000 INFO @ Thu, 16 Apr 2020 00:03:17: 54000000 INFO @ Thu, 16 Apr 2020 00:03:20: 59000000 INFO @ Thu, 16 Apr 2020 00:03:22: 50000000 INFO @ Thu, 16 Apr 2020 00:03:24: 55000000 INFO @ Thu, 16 Apr 2020 00:03:27: 60000000 INFO @ Thu, 16 Apr 2020 00:03:29: 51000000 INFO @ Thu, 16 Apr 2020 00:03:32: 56000000 INFO @ Thu, 16 Apr 2020 00:03:32: #1 tag size is determined as 150 bps INFO @ Thu, 16 Apr 2020 00:03:32: #1 tag size = 150 INFO @ Thu, 16 Apr 2020 00:03:32: #1 total tags in treatment: 21667217 INFO @ Thu, 16 Apr 2020 00:03:32: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:03:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 00:03:32: #1 tags after filtering in treatment: 17867268 INFO @ Thu, 16 Apr 2020 00:03:32: #1 Redundant rate of treatment: 0.18 INFO @ Thu, 16 Apr 2020 00:03:32: #1 finished! INFO @ Thu, 16 Apr 2020 00:03:32: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:03:32: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:03:34: #2 number of paired peaks: 245 WARNING @ Thu, 16 Apr 2020 00:03:34: Fewer paired peaks (245) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 245 pairs to build model! INFO @ Thu, 16 Apr 2020 00:03:34: start model_add_line... INFO @ Thu, 16 Apr 2020 00:03:34: start X-correlation... INFO @ Thu, 16 Apr 2020 00:03:34: end of X-cor INFO @ Thu, 16 Apr 2020 00:03:34: #2 finished! INFO @ Thu, 16 Apr 2020 00:03:34: #2 predicted fragment length is 213 bps INFO @ Thu, 16 Apr 2020 00:03:34: #2 alternative fragment length(s) may be 4,213 bps INFO @ Thu, 16 Apr 2020 00:03:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.05_model.r WARNING @ Thu, 16 Apr 2020 00:03:34: #2 Since the d (213) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 16 Apr 2020 00:03:34: #2 You may need to consider one of the other alternative d(s): 4,213 WARNING @ Thu, 16 Apr 2020 00:03:34: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 16 Apr 2020 00:03:34: #3 Call peaks... INFO @ Thu, 16 Apr 2020 00:03:34: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 00:03:36: 52000000 INFO @ Thu, 16 Apr 2020 00:03:39: 57000000 INFO @ Thu, 16 Apr 2020 00:03:43: 53000000 INFO @ Thu, 16 Apr 2020 00:03:46: 58000000 INFO @ Thu, 16 Apr 2020 00:03:50: 54000000 INFO @ Thu, 16 Apr 2020 00:03:53: 59000000 INFO @ Thu, 16 Apr 2020 00:03:58: 55000000 INFO @ Thu, 16 Apr 2020 00:04:00: 60000000 INFO @ Thu, 16 Apr 2020 00:04:05: #1 tag size is determined as 150 bps INFO @ Thu, 16 Apr 2020 00:04:05: #1 tag size = 150 INFO @ Thu, 16 Apr 2020 00:04:05: #1 total tags in treatment: 21667217 INFO @ Thu, 16 Apr 2020 00:04:05: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:04:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 00:04:05: 56000000 INFO @ Thu, 16 Apr 2020 00:04:05: #1 tags after filtering in treatment: 17867268 INFO @ Thu, 16 Apr 2020 00:04:05: #1 Redundant rate of treatment: 0.18 INFO @ Thu, 16 Apr 2020 00:04:05: #1 finished! INFO @ Thu, 16 Apr 2020 00:04:05: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:04:05: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:04:07: #2 number of paired peaks: 245 WARNING @ Thu, 16 Apr 2020 00:04:07: Fewer paired peaks (245) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 245 pairs to build model! INFO @ Thu, 16 Apr 2020 00:04:07: start model_add_line... INFO @ Thu, 16 Apr 2020 00:04:07: start X-correlation... INFO @ Thu, 16 Apr 2020 00:04:07: end of X-cor INFO @ Thu, 16 Apr 2020 00:04:07: #2 finished! INFO @ Thu, 16 Apr 2020 00:04:07: #2 predicted fragment length is 213 bps INFO @ Thu, 16 Apr 2020 00:04:07: #2 alternative fragment length(s) may be 4,213 bps INFO @ Thu, 16 Apr 2020 00:04:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.10_model.r WARNING @ Thu, 16 Apr 2020 00:04:07: #2 Since the d (213) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 16 Apr 2020 00:04:07: #2 You may need to consider one of the other alternative d(s): 4,213 WARNING @ Thu, 16 Apr 2020 00:04:07: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 16 Apr 2020 00:04:07: #3 Call peaks... INFO @ Thu, 16 Apr 2020 00:04:07: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 00:04:10: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 00:04:12: 57000000 INFO @ Thu, 16 Apr 2020 00:04:19: 58000000 INFO @ Thu, 16 Apr 2020 00:04:26: 59000000 INFO @ Thu, 16 Apr 2020 00:04:28: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.05_peaks.xls INFO @ Thu, 16 Apr 2020 00:04:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.05_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 00:04:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.05_summits.bed INFO @ Thu, 16 Apr 2020 00:04:28: Done! pass1 - making usageList (7 chroms): 4 millis pass2 - checking and writing primary data (28484 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 00:04:32: 60000000 INFO @ Thu, 16 Apr 2020 00:04:37: #1 tag size is determined as 150 bps INFO @ Thu, 16 Apr 2020 00:04:37: #1 tag size = 150 INFO @ Thu, 16 Apr 2020 00:04:37: #1 total tags in treatment: 21667217 INFO @ Thu, 16 Apr 2020 00:04:37: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:04:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 00:04:38: #1 tags after filtering in treatment: 17867268 INFO @ Thu, 16 Apr 2020 00:04:38: #1 Redundant rate of treatment: 0.18 INFO @ Thu, 16 Apr 2020 00:04:38: #1 finished! INFO @ Thu, 16 Apr 2020 00:04:38: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:04:38: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:04:39: #2 number of paired peaks: 245 WARNING @ Thu, 16 Apr 2020 00:04:39: Fewer paired peaks (245) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 245 pairs to build model! INFO @ Thu, 16 Apr 2020 00:04:39: start model_add_line... INFO @ Thu, 16 Apr 2020 00:04:39: start X-correlation... INFO @ Thu, 16 Apr 2020 00:04:39: end of X-cor INFO @ Thu, 16 Apr 2020 00:04:39: #2 finished! INFO @ Thu, 16 Apr 2020 00:04:39: #2 predicted fragment length is 213 bps INFO @ Thu, 16 Apr 2020 00:04:39: #2 alternative fragment length(s) may be 4,213 bps INFO @ Thu, 16 Apr 2020 00:04:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.20_model.r WARNING @ Thu, 16 Apr 2020 00:04:39: #2 Since the d (213) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 16 Apr 2020 00:04:39: #2 You may need to consider one of the other alternative d(s): 4,213 WARNING @ Thu, 16 Apr 2020 00:04:39: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 16 Apr 2020 00:04:39: #3 Call peaks... INFO @ Thu, 16 Apr 2020 00:04:39: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 00:04:40: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 00:04:57: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.10_peaks.xls INFO @ Thu, 16 Apr 2020 00:04:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.10_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 00:04:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.10_summits.bed INFO @ Thu, 16 Apr 2020 00:04:57: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (14376 records, 4 fields): 13 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 16 Apr 2020 00:05:15: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 00:05:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.20_peaks.xls INFO @ Thu, 16 Apr 2020 00:05:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.20_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 00:05:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6619545/SRX6619545.20_summits.bed INFO @ Thu, 16 Apr 2020 00:05:33: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (2452 records, 4 fields): 3 millis CompletedMACS2peakCalling BigWig に変換しました。