PrivacyScanData/target/File/project_creator_3.py

def createProject(projectFolder, projectName, inputFasta):
    # Check if project folder exists
    if(not path.isdir(projectFolder)):
        os.mkdir(projectFolder)    
    # Check if given project already exits
    projectFolderPath = os.path.join(projectFolder,projectName)
    if(path.isdir(projectFolderPath)):
        print("Project already exists, process aborted")
        return "EXIT"
    os.mkdir(projectFolderPath)
    # Create folder structure for annotation softwares
    os.mkdir(os.path.join(projectFolderPath,"tirvish"))
    os.mkdir(os.path.join(projectFolderPath,"tirvish_rc"))
    os.mkdir(os.path.join(projectFolderPath,"sinescan"))
    os.mkdir(os.path.join(projectFolderPath,"sinefind"))
    os.mkdir(os.path.join(projectFolderPath,"sinefind_rc"))
    os.mkdir(os.path.join(projectFolderPath,"repMasker"))
    os.mkdir(os.path.join(projectFolderPath,"repeatmodel"))
    os.mkdir(os.path.join(projectFolderPath,"must"))
    os.mkdir(os.path.join(projectFolderPath,"mitetracker"))
    os.mkdir(os.path.join(projectFolderPath,"mitetracker_rc"))
    os.mkdir(os.path.join(projectFolderPath,"mitefind"))
    os.mkdir(os.path.join(projectFolderPath,"mitefind_rc"))
    os.mkdir(os.path.join(projectFolderPath,"ltrPred"))
    os.mkdir(os.path.join(projectFolderPath,"ltrHarvest"))
    os.mkdir(os.path.join(projectFolderPath,"helitronScanner"))
    os.mkdir(os.path.join(projectFolderPath,"helitronScanner_rc")) 
    os.mkdir(os.path.join(projectFolderPath,"transposonPSI")) 
    os.mkdir(os.path.join(projectFolderPath,"NCBICDD1000")) 
    os.mkdir(os.path.join(projectFolderPath,"parsedAnnotations")) 
    os.mkdir(os.path.join(projectFolderPath,"transposonCandA")) 
    os.mkdir(os.path.join(projectFolderPath,"transposonCandB")) 
    os.mkdir(os.path.join(projectFolderPath,"transposonCandC")) 
    os.mkdir(os.path.join(projectFolderPath,"transposonCandD")) 
    os.mkdir(os.path.join(projectFolderPath,"transposonCandE")) 
    os.mkdir(os.path.join(projectFolderPath,"transposonCandF")) 
    os.mkdir(os.path.join(projectFolderPath,"finalResults")) 
    # Copy DNA into folder
    copySequenceClean(inputFasta,projectFolderPath)

#createProject("projects", "testProject", "G:/CambridgeGenData/GenSeq/RHIZIPHAGUS_IRR/rir17contigs.fasta")