def test_nodefault_nooptional_prefix_nosep(self):
ti = ToolInput("tag",
String(),
prefix="--amazing=",
separate_value_from_prefix=False)
resp = wdl.translate_command_input(ti)
self.assertEqual("--amazing=~{tag}", resp.get_string())
def test_default_optional_position(self):
ti = ToolInput("tag",
String(optional=True),
position=0,
default="defval")
resp = wdl.translate_command_input(ti)
self.assertEqual('~{select_first([tag, "defval"])}', resp.get_string())
def test_nodefault_optional_prefix_sep(self):
ti = ToolInput("tag", String(optional=True), prefix="--amazing")
resp = wdl.translate_command_input(ti)
self.assertEqual(
'~{if defined(tag) then ("--amazing " + \'"\' + tag + \'"\') else ""}',
resp.get_string(),
)
def test_bind_boolean_as_default(self):
ti = ToolInput("tag",
Boolean(optional=True),
prefix="--amazing",
default=True)
resp = wdl.translate_command_input(ti).get_string()
self.assertEqual(
'~{true="--amazing" false="" select_first([tag, true])}', resp)
def test_tool_input_value_default_cpuselect(self):
ti = ToolInput("threads", Int(), default=CpuSelector(), prefix="-t")
tid = {"threads": ti}
tr = wdl.translate_command_input(ti)
self.assertEqual(
"-t ~{select_first([threads, select_first([runtime_cpu, 1])])}",
tr.get_string(),
)
def test_nodefault_optional_prefix_nosep(self):
ti = ToolInput(
"tag",
String(optional=True),
prefix="--amazing=",
separate_value_from_prefix=False,
)
resp = wdl.translate_command_input(ti, {"tag": ti})
self.assertEqual('${"--amazing=" + tag}', resp.get_string())
def test_default_optional_prefix_sep(self):
ti = ToolInput(
"tag", String(optional=True), prefix="--amazing", default="defval"
)
resp = wdl.translate_command_input(ti, {"tag": ti})
self.assertEqual(
'${"--amazing " + if defined(tag) then tag else "defval"}',
resp.get_string(),
)
def test_tool_input_value_default_cpuselect_nodefault(self):
ti = ToolInput("threads", Int(), default=CpuSelector(None), prefix="-t")
tid = {"threads": ti}
tr = wdl.translate_command_input(ti, tid)
self.assertEqual(
'${"-t " + if defined(threads) then threads else runtime_cpu}',
tr.get_string(),
)
def test_default_optional_prefix_sep(self):
ti = ToolInput("tag",
String(optional=True),
prefix="--amazing",
default="defval")
resp = wdl.translate_command_input(ti)
self.assertEqual(
'~{if defined(select_first([tag, "defval"])) then ("--amazing " + \'"\' + select_first([tag, "defval"]) + \'"\') else ""}',
resp.get_string(),
)
def test_default_nooptional_prefix_nosep(self):
ti = ToolInput(
"tag",
String(),
prefix="--amazing=",
separate_value_from_prefix=False,
default="defval",
)
resp = wdl.translate_command_input(ti)
self.assertEqual('--amazing=~{select_first([tag, "defval"])}',
resp.get_string())
def test_default_nooptional_prefix_nosep(self):
ti = ToolInput(
"tag",
String(),
prefix="--amazing=",
separate_value_from_prefix=False,
default="defval",
)
resp = wdl.translate_command_input(ti, {"tag": ti})
self.assertEqual(
'--amazing=${if defined(tag) then tag else "defval"}', resp.get_string()
)
def test_nodefault_optional_prefix_nosep(self):
ti = ToolInput(
"tag",
String(optional=True),
prefix="--amazing=",
separate_value_from_prefix=False,
)
resp = wdl.translate_command_input(ti)
self.assertEqual(
'~{if defined(tag) then (\'"\' + "--amazing=" + tag + \'"\') else ""}',
resp.get_string(),
)
def test_bind_boolean_as_default(self):
ti = ToolInput("tag", Boolean(optional=True), prefix="--amazing", default=True)
resp = wdl.translate_command_input(ti, None).get_string()
self.assertEqual(
'${true="--amazing" false="" if defined(tag) then tag else true}', resp
)
def test_default_optional_position(self):
ti = ToolInput("tag", String(optional=True), position=0, default="defval")
resp = wdl.translate_command_input(ti, {"tag": ti})
self.assertEqual('${if defined(tag) then tag else "defval"}', resp.get_string())
def test_nodefault_optional_position(self):
ti = ToolInput("tag", String(optional=True), position=0)
resp = wdl.translate_command_input(ti, {"tag": ti})
self.assertEqual("${tag}", resp.get_string())
def test_nodefault_nooptional_prefix_sep(self):
ti = ToolInput("tag", String(), prefix="--amazing")
resp = wdl.translate_command_input(ti, {"tag": ti})
self.assertEqual("--amazing ${tag}", resp.get_string())
def test_default_nooptional_position(self):
# this will get turned into an optional
ti = ToolInput("tag", String(), position=0, default="defval")
resp = wdl.translate_command_input(ti)
self.assertEqual('~{select_first([tag, "defval"])}', resp.get_string())
