08:29:52.183 INFO com.gene.igbscript.IGBScriptEngine - Running script# Stress Testing # select and open the human genome genome H_sapiens_Dec_2013 # Add all of the RNA-Seq scaled coverage graphs (20 total) to the IGB Data Management Table load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957124_Adrenal_gland.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957125_Brain_Cerebellum.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957183_Brain_Whole.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957186_Brain_Fetal.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957188_Liver_Fetal.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957191_Heart.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957192_Kidney.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957193_Liver.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957195_Lung.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957197_Placenta.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957198_Prostate.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957200_Salivary_Gland.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957201_Skeletal_Muscle.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957202_Small_Intestine.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957203_Spleen.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957205_Stomach.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957206_Thymus.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957207_Thyroid.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957208_Trachea.scaled.bedgraph.gz load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957209_Uterus.scaled.bedgraph.gz # load the data in IGB refresh # go to a an area of the genome with interesting gene expression happening # commas are optional goto chr1:206,940,473-206,940,546 # zoom out a little bit goto chr1:206,940,481-206,940,589 # hide tracks that aren't interesting at that gene hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957124_Adrenal_gland.scaled.bedgraph.gz hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957125_Brain_Cerebellum.scaled.bedgraph.gz hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957193_Liver.scaled.bedgraph.gz hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957191_Heart.scaled.bedgraph.gz hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957188_Liver_Fetal.scaled.bedgraph.gz hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957186_Brain_Fetal.scaled.bedgraph.gz hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957183_Brain_Whole.scaled.bedgraph.gz hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957201_Skeletal_Muscle.scaled.bedgraph.gz hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957197_Placenta.scaled.bedgraph.gz hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957198_Prostate.scaled.bedgraph.gz hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957206_Thymus.scaled.bedgraph.gz hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957203_Spleen.scaled.bedgraph.gz hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957209_Uterus.scaled.bedgraph.gz # load sequence in IGB loadsequence # remove certain datasets from IGB unload http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957192_Kidney.scaled.bedgraph.gz, http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957195_Lung.scaled.bedgraph.gz, http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957207_Thyroid.scaled.bedgraph.gz 08:29:52.202 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: genome H_sapiens_Dec_2013 08:30:00.838 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957124_Adrenal_gland.scaled.bedgraph.gz 08:30:00.839 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957124_Adrenal_gland.scaled.bedgraph.gz is proper. No schema found 08:30:02.478 INFO c.a.igb.view.load.GeneralLoadUtils - Loaded RefSeq Curated in 3.342 s 08:30:03.236 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957125_Brain_Cerebellum.scaled.bedgraph.gz 08:30:03.237 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957125_Brain_Cerebellum.scaled.bedgraph.gz is proper. No schema found 08:30:04.274 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957183_Brain_Whole.scaled.bedgraph.gz 08:30:04.275 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957183_Brain_Whole.scaled.bedgraph.gz is proper. No schema found 08:30:05.327 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957186_Brain_Fetal.scaled.bedgraph.gz 08:30:05.328 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957186_Brain_Fetal.scaled.bedgraph.gz is proper. No schema found 08:30:06.381 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957188_Liver_Fetal.scaled.bedgraph.gz 08:30:06.382 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957188_Liver_Fetal.scaled.bedgraph.gz is proper. No schema found 08:30:07.488 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957191_Heart.scaled.bedgraph.gz 08:30:07.489 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957191_Heart.scaled.bedgraph.gz is proper. No schema found 08:30:08.541 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957192_Kidney.scaled.bedgraph.gz 08:30:08.542 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957192_Kidney.scaled.bedgraph.gz is proper. No schema found 08:30:09.572 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957193_Liver.scaled.bedgraph.gz 08:30:09.572 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957193_Liver.scaled.bedgraph.gz is proper. No schema found 08:30:10.621 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957195_Lung.scaled.bedgraph.gz 08:30:10.621 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957195_Lung.scaled.bedgraph.gz is proper. No schema found 08:30:11.654 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957197_Placenta.scaled.bedgraph.gz 08:30:11.655 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957197_Placenta.scaled.bedgraph.gz is proper. No schema found 08:30:12.706 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957198_Prostate.scaled.bedgraph.gz 08:30:12.706 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957198_Prostate.scaled.bedgraph.gz is proper. No schema found 08:30:13.751 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957200_Salivary_Gland.scaled.bedgraph.gz 08:30:13.751 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957200_Salivary_Gland.scaled.bedgraph.gz is proper. No schema found 08:30:14.793 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957201_Skeletal_Muscle.scaled.bedgraph.gz 08:30:14.794 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957201_Skeletal_Muscle.scaled.bedgraph.gz is proper. No schema found 08:30:15.848 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957202_Small_Intestine.scaled.bedgraph.gz 08:30:15.848 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957202_Small_Intestine.scaled.bedgraph.gz is proper. No schema found 08:30:16.877 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957203_Spleen.scaled.bedgraph.gz 08:30:16.877 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957203_Spleen.scaled.bedgraph.gz is proper. No schema found 08:30:17.909 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957205_Stomach.scaled.bedgraph.gz 08:30:17.909 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957205_Stomach.scaled.bedgraph.gz is proper. No schema found 08:30:18.939 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957206_Thymus.scaled.bedgraph.gz 08:30:18.939 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957206_Thymus.scaled.bedgraph.gz is proper. No schema found 08:30:19.968 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957207_Thyroid.scaled.bedgraph.gz 08:30:19.968 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957207_Thyroid.scaled.bedgraph.gz is proper. No schema found 08:30:21.004 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957208_Trachea.scaled.bedgraph.gz 08:30:21.004 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957208_Trachea.scaled.bedgraph.gz is proper. No schema found 08:30:22.036 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: load http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957209_Uterus.scaled.bedgraph.gz 08:30:22.036 WARN c.a.genometry.util.LocalUrlCacher - Check if Url http-//lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957209_Uterus.scaled.bedgraph.gz is proper. No schema found 08:30:23.073 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: refresh 08:30:24.077 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: goto chr1:206,940,473-206,940,546 08:30:25.082 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: goto chr1:206,940,481-206,940,589 08:30:26.083 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957124_Adrenal_gland.scaled.bedgraph.gz 08:30:27.120 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957125_Brain_Cerebellum.scaled.bedgraph.gz 08:30:28.156 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957193_Liver.scaled.bedgraph.gz 08:30:29.194 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957191_Heart.scaled.bedgraph.gz 08:30:30.228 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957188_Liver_Fetal.scaled.bedgraph.gz 08:30:31.266 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957186_Brain_Fetal.scaled.bedgraph.gz 08:30:32.294 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957183_Brain_Whole.scaled.bedgraph.gz 08:30:33.329 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957201_Skeletal_Muscle.scaled.bedgraph.gz 08:30:34.364 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957197_Placenta.scaled.bedgraph.gz 08:30:35.402 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957198_Prostate.scaled.bedgraph.gz 08:30:36.431 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957206_Thymus.scaled.bedgraph.gz 08:30:37.484 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957203_Spleen.scaled.bedgraph.gz 08:30:38.521 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: hidetrack http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957209_Uterus.scaled.bedgraph.gz 08:30:39.555 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: loadsequence 08:30:40.560 INFO com.gene.igbscript.IGBScriptEngine - doSingleAction line: unload http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957192_Kidney.scaled.bedgraph.gz, http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957195_Lung.scaled.bedgraph.gz, http://lorainelab-quickload.scidas.org/rnaseq/H_sapiens_Dec_2013/SRP056969/SRR1957207_Thyroid.scaled.bedgraph.gz 08:30:42.791 INFO com.affymetrix.igb.IGB - Completed loading sequence for chr1 : 206,940,481 - 206,940,589 from IGB Quickload http://lorainelab-quickload.scidas.org/quickload/