lecture_notes:04-16-2010
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lecture_notes:04-16-2010 [2010/04/17 00:22] svasili |
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| * make.log - keeps track of what happened. | * make.log - keeps track of what happened. | ||
| - | ====== Things to remember while running assembly tools====== | + | ====== Things to remember while running assembly tools ====== |
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| - | * All the assemblies should be listed under /campusdata/BME235/assemblies. | + | * All the assemblies should be listed under /campusdata/BME235/assemblies. |
| - | * Include .cshrc file in your path. | + | * Include .cshrc file in your path. |
| - | * Its better to run the tool in the current working directory. | + | * Its better to run the tool in the current working directory. |
| - | * Create a README file in each new directory and it should contain all the necessary stuff required to run the assembly tool. | + | * Create a README file in each new directory and it should contain all the necessary stuff required to run the assembly tool. |
| - | * Create Makefile for each assembly tool. (Makefile for newbler_assembly tool is in /campusdata/BME235/assemblies/Pog//newbler-assembly1/). You can use it as a template and modify the data source and the expected coverage as required. Makefile should be considered as "a book for lab protocols". | + | * Create Makefile for each assembly tool. (Makefile for newbler_assembly tool is in /campusdata/BME235/assemblies/Pog//newbler-assembly1/). You can use it as a template and modify the data source and the expected coverage as required. Makefile should be considered as "a book for lab protocols". |
| - | * Its always better to say append to make.log in Makefile. | + | * Its always better to say append to make.log in Makefile. |
| - | * Wiki page for assembly tools should contain a summary of how to run the tool and other things that might be useful to look at. | + | * Wiki page for assembly tools should contain a summary of how to run the tool and other things that might be useful to look at. |
lecture_notes/04-16-2010.txt · Last modified: 2010/04/20 03:09 by karplus
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