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package edu.stsci
class Conda implements Serializable {
private String ident
public String prefix
public boolean prefix_exists
public Map<String, String> shell_environment
public String environment_name
public ArrayList channels
public boolean override
Conda (prefix) {
this.ident = '[CONDA]'
this.prefix = prefix
this.prefix_exists = new File(this.prefix).exists()
this.shell_environment = [:]
this.environment_name = ""
this.channels = []
this.override = false
if (this.prefix_exists) {
this.activate("root")
}
}
private def runshell(String args, silent=false) {
def cmd = new String[3]
def proc_env = [:]
if (this.shell_environment) {
proc_env = this.shell_environment
}
cmd[0] = 'bash'
cmd[1] = '-c'
cmd[2] = args
def process = new ProcessBuilder(cmd)
process.redirectErrorStream(true)
Map<String, String> env_tmp = process.environment()
if (proc_env) {
env_tmp <<= proc_env
}
Process p = process.start()
if (!silent) {
p.inputStream.eachLine { println it}
}
p.waitFor()
return p
}
void activate(String conda_env) {
def records = [:]
def env_dump = this.runshell("source ${prefix}/bin/activate ${conda_env} ; printenv", true)
/* Split each environment keypair by first occurance of '=' */
env_dump.inputStream.eachLine { line ->
if(line) {
def pair = line.split('=', 2).collect { it.trim() }
/* Strip out envmodules if they exist, i.e. multiline variables*/
if (pair[0].contains("_FUNC_") || !line.contains("=")) {
return
}
records."${pair[0]}" = pair[1]
}
}
/* runshell can now natively resolve this conda installation */
this.shell_environment = records
/* record latest conda environment name */
this.environment_name = conda_env
}
def version() {
return this.runshell("conda --version")
}
def verify() {
this.runshell("echo \$PATH")
this.runshell("which python")
this.runshell("python -c 'from pprint import pprint; import sys; pprint(sys.path)'")
}
def command(String task, String... args) {
/* Not every Conda task accepts --quiet or --yes
so only apply $extra_args when necessary */
ArrayList silent_args = ["--quiet", "--yes"]
boolean use_channels = false
boolean prompt_avoid = false
ArrayList channels = this.channels
switch (task) {
case 'install':
use_channels = true
prompt_avoid = true
break
case 'create':
use_channels = true
prompt_avoid = true
break
case 'search':
use_channels = true
case 'env remove':
prompt_avoid = true
break
default:
break
}
String cmd = "${prefix}/bin/conda ${task}"
cmd += ' ' + args.join(' ')
if (prompt_avoid) {
cmd += ' ' + silent_args.join(' ')
}
if (use_channels) {
if (this.override) {
cmd += " --override-channels"
channels.add("defaults")
}
for (channel in channels) {
cmd += ' -c ' + channel
}
}
println("${this.ident} ${cmd}")
return this.runshell(cmd)
}
boolean provides(String env_name) {
def result = ""
def output = this.runshell("${this.prefix}/bin/conda env list", true)
output.inputStream.eachLine { line ->
if (line && !line.matches('^#.*$')) {
def tmp = line.split(' ')[0].trim()
if (tmp == env_name) {
result = tmp
return
}
}
}
if (env_name == result) {
return true
}
return false
}
int create(String name, String packages) {
String args = "-n \"${name}\""
def proc = this.command("create", args, packages)
return proc.exitcode
}
int install(String packages, boolean reinstall=false) {
String args = ""
if (reinstall) {
args = "--force"
}
def proc = this.command("install", args, packages)
return proc.exitcode
}
int remove(String packages, boolean force=false) {
String args = ""
if (force) {
args = "--force"
}
def proc = this.command("remove", args, packages)
return proc.exitcode
}
int destroy(String name) {
String args = "-n \"${name}\""
def proc = this.command("env remove", args)
return proc.exitcode
}
}
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